Query 016021
Match_columns 396
No_of_seqs 289 out of 1483
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 03:04:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016021.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016021hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 1.1E-38 2.4E-43 323.1 18.4 132 1-132 1-132 (459)
2 PLN03212 Transcription repress 100.0 4E-35 8.6E-40 279.7 12.9 127 3-129 14-140 (249)
3 KOG0048 Transcription factor, 100.0 2.9E-33 6.3E-38 266.2 11.4 115 10-124 5-119 (238)
4 KOG0049 Transcription factor, 99.8 3.6E-21 7.9E-26 201.8 8.0 136 3-138 242-432 (939)
5 KOG0049 Transcription factor, 99.8 1.3E-20 2.9E-25 197.6 6.5 106 1-107 347-453 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 1E-16 2.3E-21 121.4 3.8 60 17-78 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.5 4.9E-15 1.1E-19 154.8 5.9 108 9-117 15-122 (512)
8 KOG0050 mRNA splicing protein 99.5 5.5E-15 1.2E-19 152.8 3.2 105 12-118 5-109 (617)
9 PLN03212 Transcription repress 99.5 1.5E-14 3.2E-19 139.1 5.6 87 43-137 9-97 (249)
10 KOG0051 RNA polymerase I termi 99.5 4.7E-14 1E-18 149.1 5.8 103 13-118 383-513 (607)
11 PF13921 Myb_DNA-bind_6: Myb-l 99.5 4.2E-14 9.1E-19 107.1 3.5 60 70-129 1-60 (60)
12 PLN03091 hypothetical protein; 99.4 8.5E-14 1.9E-18 142.6 4.6 73 62-134 9-83 (459)
13 KOG0048 Transcription factor, 99.4 1.1E-13 2.3E-18 132.3 4.6 76 63-138 5-82 (238)
14 PF00249 Myb_DNA-binding: Myb- 99.4 1.6E-13 3.5E-18 100.4 1.1 48 14-61 1-48 (48)
15 PF00249 Myb_DNA-binding: Myb- 99.3 1E-12 2.3E-17 96.1 4.9 46 67-112 1-48 (48)
16 smart00717 SANT SANT SWI3, AD 99.2 4.8E-11 1E-15 84.1 5.5 47 67-113 1-48 (49)
17 KOG0051 RNA polymerase I termi 99.1 2.4E-10 5.1E-15 121.4 7.5 124 13-138 307-456 (607)
18 smart00717 SANT SANT SWI3, AD 99.0 1E-10 2.2E-15 82.4 2.5 48 14-62 1-48 (49)
19 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 4.1E-10 8.8E-15 78.3 5.4 44 69-112 1-45 (45)
20 COG5147 REB1 Myb superfamily p 98.9 7.5E-10 1.6E-14 116.3 3.9 129 3-134 61-359 (512)
21 cd00167 SANT 'SWI3, ADA2, N-Co 98.9 6.5E-10 1.4E-14 77.3 2.2 45 16-61 1-45 (45)
22 KOG0050 mRNA splicing protein 98.1 1.8E-06 4E-11 90.5 3.4 70 65-134 5-75 (617)
23 TIGR01557 myb_SHAQKYF myb-like 97.7 2.6E-05 5.6E-10 60.1 2.5 49 13-61 2-54 (57)
24 TIGR01557 myb_SHAQKYF myb-like 97.5 0.00025 5.5E-09 54.6 5.6 46 67-112 3-54 (57)
25 KOG0457 Histone acetyltransfer 97.4 6.3E-05 1.4E-09 77.9 2.0 90 12-102 70-181 (438)
26 KOG0457 Histone acetyltransfer 97.3 0.00035 7.5E-09 72.5 5.6 49 64-112 69-118 (438)
27 TIGR02894 DNA_bind_RsfA transc 97.1 0.00048 1E-08 63.3 4.4 51 66-117 3-60 (161)
28 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.00056 1.2E-08 55.0 3.0 51 67-117 1-69 (90)
29 PF13325 MCRS_N: N-terminal re 97.0 0.0012 2.7E-08 62.6 5.3 100 16-117 1-131 (199)
30 KOG1279 Chromatin remodeling f 96.7 0.0019 4.1E-08 68.8 5.1 45 66-110 252-296 (506)
31 PF08914 Myb_DNA-bind_2: Rap1 96.7 0.0025 5.5E-08 50.4 4.2 51 67-117 2-62 (65)
32 COG5259 RSC8 RSC chromatin rem 96.6 0.0008 1.7E-08 70.5 1.4 46 13-60 278-323 (531)
33 COG5259 RSC8 RSC chromatin rem 96.6 0.0021 4.5E-08 67.5 4.3 45 67-111 279-323 (531)
34 KOG1279 Chromatin remodeling f 96.5 0.0016 3.6E-08 69.3 3.0 46 13-60 252-297 (506)
35 PRK13923 putative spore coat p 96.3 0.004 8.8E-08 57.8 4.0 53 65-118 3-62 (170)
36 PF13837 Myb_DNA-bind_4: Myb/S 96.1 0.0016 3.5E-08 52.3 0.2 46 15-60 2-63 (90)
37 TIGR02894 DNA_bind_RsfA transc 96.1 0.0015 3.2E-08 60.2 -0.2 50 12-63 2-57 (161)
38 PF08914 Myb_DNA-bind_2: Rap1 95.9 0.0025 5.4E-08 50.4 0.6 52 14-65 2-61 (65)
39 PF13873 Myb_DNA-bind_5: Myb/S 95.9 0.02 4.4E-07 45.3 5.8 51 67-117 2-74 (78)
40 COG5114 Histone acetyltransfer 95.1 0.068 1.5E-06 54.3 7.6 47 67-113 63-110 (432)
41 COG5114 Histone acetyltransfer 94.6 0.011 2.4E-07 59.9 0.5 47 15-62 64-110 (432)
42 PLN03142 Probable chromatin-re 94.5 0.064 1.4E-06 61.8 6.3 101 16-117 826-989 (1033)
43 PRK13923 putative spore coat p 94.4 0.011 2.4E-07 55.0 -0.1 50 11-62 2-57 (170)
44 PF13873 Myb_DNA-bind_5: Myb/S 94.3 0.011 2.4E-07 46.8 -0.1 49 13-61 1-69 (78)
45 KOG2656 DNA methyltransferase 93.2 0.12 2.7E-06 53.6 5.0 87 35-122 74-191 (445)
46 KOG4282 Transcription factor G 92.6 0.2 4.2E-06 50.5 5.4 51 67-117 54-118 (345)
47 PF09111 SLIDE: SLIDE; InterP 92.0 0.29 6.3E-06 43.0 5.0 53 64-116 46-114 (118)
48 KOG4167 Predicted DNA-binding 91.7 0.33 7.2E-06 53.9 6.2 55 2-58 604-661 (907)
49 PF12776 Myb_DNA-bind_3: Myb/S 91.4 0.43 9.4E-06 38.7 5.2 46 69-114 1-64 (96)
50 KOG1194 Predicted DNA-binding 89.3 1 2.3E-05 47.8 7.0 50 66-115 186-235 (534)
51 KOG4167 Predicted DNA-binding 89.1 1.5 3.3E-05 48.9 8.4 43 68-110 620-662 (907)
52 COG5118 BDP1 Transcription ini 84.5 1.4 3.1E-05 45.9 4.8 46 69-114 367-412 (507)
53 PF08281 Sigma70_r4_2: Sigma-7 83.7 2.5 5.4E-05 30.9 4.6 42 72-114 12-53 (54)
54 KOG4282 Transcription factor G 82.1 0.63 1.4E-05 46.8 1.2 46 15-60 55-112 (345)
55 PF11626 Rap1_C: TRF2-interact 78.3 1.1 2.4E-05 36.9 1.3 31 10-43 43-81 (87)
56 PF09111 SLIDE: SLIDE; InterP 74.6 2.2 4.9E-05 37.5 2.2 34 11-44 46-82 (118)
57 smart00595 MADF subfamily of S 73.8 4.9 0.00011 32.2 3.9 26 89-115 30-55 (89)
58 KOG4468 Polycomb-group transcr 70.2 9.5 0.00021 42.1 6.1 53 66-118 87-149 (782)
59 PF11035 SnAPC_2_like: Small n 68.8 15 0.00033 37.7 6.8 50 67-116 21-74 (344)
60 PF04545 Sigma70_r4: Sigma-70, 64.9 14 0.00029 26.7 4.3 42 73-115 7-48 (50)
61 PF13404 HTH_AsnC-type: AsnC-t 63.7 2.8 6.1E-05 30.2 0.5 38 20-59 3-40 (42)
62 COG5118 BDP1 Transcription ini 63.4 4.1 8.9E-05 42.7 1.7 44 14-59 365-408 (507)
63 PRK11179 DNA-binding transcrip 63.4 10 0.00022 33.8 4.1 45 73-118 9-54 (153)
64 PRK11179 DNA-binding transcrip 62.5 3.4 7.4E-05 36.9 0.9 47 19-67 8-54 (153)
65 PF12776 Myb_DNA-bind_3: Myb/S 62.1 6.1 0.00013 31.9 2.2 44 16-59 1-60 (96)
66 PF13404 HTH_AsnC-type: AsnC-t 61.8 15 0.00032 26.5 3.9 38 73-111 3-41 (42)
67 PRK11169 leucine-responsive tr 60.8 3 6.4E-05 37.8 0.2 47 18-66 12-58 (164)
68 PF13325 MCRS_N: N-terminal re 59.6 17 0.00038 34.9 5.1 44 69-113 1-47 (199)
69 TIGR02985 Sig70_bacteroi1 RNA 57.5 20 0.00044 30.5 4.8 39 76-115 119-157 (161)
70 PRK11169 leucine-responsive tr 55.5 13 0.00028 33.6 3.4 46 72-118 13-59 (164)
71 KOG4329 DNA-binding protein [G 52.2 42 0.00092 35.3 6.8 42 69-110 279-321 (445)
72 PF01388 ARID: ARID/BRIGHT DNA 50.9 31 0.00067 27.9 4.6 38 77-114 40-90 (92)
73 PF11626 Rap1_C: TRF2-interact 50.3 15 0.00033 30.1 2.7 17 63-79 43-59 (87)
74 smart00501 BRIGHT BRIGHT, ARID 46.4 38 0.00083 27.7 4.5 39 77-115 36-87 (93)
75 TIGR02937 sigma70-ECF RNA poly 45.7 41 0.0009 27.6 4.7 35 80-115 120-154 (158)
76 KOG2009 Transcription initiati 45.0 24 0.00053 38.8 4.0 48 65-112 407-454 (584)
77 PF07750 GcrA: GcrA cell cycle 42.0 25 0.00055 32.4 3.1 40 69-109 2-41 (162)
78 KOG2656 DNA methyltransferase 41.9 20 0.00043 37.8 2.6 48 12-60 128-180 (445)
79 KOG3841 TEF-1 and related tran 41.5 3.9E+02 0.0084 28.6 11.7 73 10-118 72-148 (455)
80 PF11035 SnAPC_2_like: Small n 40.2 90 0.002 32.3 6.9 86 14-113 21-127 (344)
81 cd08319 Death_RAIDD Death doma 39.6 35 0.00076 28.2 3.3 29 75-104 2-30 (83)
82 PRK09652 RNA polymerase sigma 39.0 60 0.0013 28.2 4.9 34 81-115 139-172 (182)
83 cd06171 Sigma70_r4 Sigma70, re 38.0 75 0.0016 21.5 4.4 40 70-111 11-50 (55)
84 PF09420 Nop16: Ribosome bioge 37.6 83 0.0018 28.7 5.7 47 66-112 113-163 (164)
85 KOG4468 Polycomb-group transcr 36.9 36 0.00077 37.9 3.7 46 14-61 88-143 (782)
86 PF04504 DUF573: Protein of un 36.6 51 0.0011 27.9 3.9 48 68-115 5-65 (98)
87 PF10545 MADF_DNA_bdg: Alcohol 36.5 35 0.00075 26.3 2.7 27 89-115 29-56 (85)
88 smart00344 HTH_ASNC helix_turn 36.5 60 0.0013 26.6 4.3 45 73-118 3-48 (108)
89 PRK11924 RNA polymerase sigma 36.2 69 0.0015 27.8 4.8 30 84-114 139-168 (179)
90 KOG0384 Chromodomain-helicase 34.4 42 0.0009 40.2 3.9 74 14-94 1133-1207(1373)
91 PF07638 Sigma70_ECF: ECF sigm 34.1 79 0.0017 28.9 5.0 37 76-113 141-177 (185)
92 cd08803 Death_ank3 Death domai 32.7 58 0.0013 26.9 3.5 29 75-104 4-32 (84)
93 PRK09750 hypothetical protein; 32.5 24 0.00053 28.0 1.2 29 339-379 1-29 (64)
94 smart00344 HTH_ASNC helix_turn 32.3 23 0.00051 29.1 1.2 45 20-66 3-47 (108)
95 PRK09643 RNA polymerase sigma 31.6 92 0.002 28.3 5.1 30 84-114 148-177 (192)
96 COG1522 Lrp Transcriptional re 31.3 20 0.00044 31.1 0.6 47 19-67 7-53 (154)
97 PRK09641 RNA polymerase sigma 30.6 82 0.0018 27.9 4.5 29 85-114 151-179 (187)
98 cd08317 Death_ank Death domain 28.3 56 0.0012 26.4 2.7 29 75-104 4-32 (84)
99 TIGR02954 Sig70_famx3 RNA poly 28.2 1.1E+02 0.0024 26.8 4.8 30 85-115 134-163 (169)
100 TIGR02939 RpoE_Sigma70 RNA pol 28.2 88 0.0019 27.7 4.2 30 85-115 153-182 (190)
101 PRK09648 RNA polymerase sigma 27.6 1.2E+02 0.0027 27.1 5.1 30 85-115 154-183 (189)
102 PRK04217 hypothetical protein; 27.4 1.2E+02 0.0025 26.6 4.6 45 69-115 42-86 (110)
103 PRK12512 RNA polymerase sigma 27.3 1.4E+02 0.003 26.6 5.4 31 85-116 146-176 (184)
104 PRK12523 RNA polymerase sigma 26.6 1.6E+02 0.0034 26.1 5.5 35 81-116 130-164 (172)
105 PRK11923 algU RNA polymerase s 26.6 1.2E+02 0.0025 27.3 4.7 29 86-115 154-182 (193)
106 PRK12515 RNA polymerase sigma 26.5 1.3E+02 0.0029 26.9 5.2 30 85-115 146-175 (189)
107 TIGR02948 SigW_bacill RNA poly 25.8 1E+02 0.0022 27.2 4.2 29 86-115 152-180 (187)
108 COG1522 Lrp Transcriptional re 25.8 99 0.0021 26.8 4.0 45 73-118 8-53 (154)
109 PRK09047 RNA polymerase factor 25.8 1.3E+02 0.0029 25.9 4.8 29 85-114 121-149 (161)
110 PRK09637 RNA polymerase sigma 25.2 1.4E+02 0.0029 27.1 4.9 30 84-114 120-149 (181)
111 PRK12532 RNA polymerase sigma 24.9 1.5E+02 0.0033 26.7 5.2 29 85-114 151-179 (195)
112 KOG1194 Predicted DNA-binding 24.6 47 0.001 35.9 2.0 46 11-58 184-229 (534)
113 PRK12531 RNA polymerase sigma 24.5 1.5E+02 0.0033 26.8 5.2 30 85-115 156-185 (194)
114 cd08318 Death_NMPP84 Death dom 24.3 87 0.0019 25.7 3.2 24 80-104 12-35 (86)
115 PRK09645 RNA polymerase sigma 24.3 1.4E+02 0.0029 26.3 4.7 29 85-114 133-161 (173)
116 TIGR02943 Sig70_famx1 RNA poly 24.3 1.5E+02 0.0034 26.8 5.2 33 81-114 142-174 (188)
117 PRK12529 RNA polymerase sigma 24.2 1.6E+02 0.0035 26.4 5.2 34 84-118 141-174 (178)
118 PRK09413 IS2 repressor TnpA; R 24.1 1.6E+02 0.0035 25.3 5.0 50 7-61 4-53 (121)
119 cd08804 Death_ank2 Death domai 23.4 90 0.002 25.6 3.1 30 75-105 4-33 (84)
120 PF07750 GcrA: GcrA cell cycle 23.1 41 0.00088 31.1 1.1 38 16-56 2-39 (162)
121 KOG4329 DNA-binding protein [G 23.1 53 0.0011 34.6 2.0 41 16-58 279-320 (445)
122 PRK09642 RNA polymerase sigma 22.9 1.8E+02 0.0039 25.2 5.1 29 85-114 121-149 (160)
123 smart00005 DEATH DEATH domain, 22.9 89 0.0019 24.7 2.9 28 75-103 5-33 (88)
124 cd08311 Death_p75NR Death doma 22.8 78 0.0017 25.8 2.6 33 72-106 2-34 (77)
125 PRK12530 RNA polymerase sigma 22.4 1.5E+02 0.0033 26.9 4.7 29 85-114 149-177 (189)
126 PRK12524 RNA polymerase sigma 22.2 1.5E+02 0.0033 26.9 4.7 29 85-114 151-179 (196)
127 PF09905 DUF2132: Uncharacteri 21.4 47 0.001 26.6 1.0 44 22-78 12-62 (64)
128 cd08779 Death_PIDD Death Domai 20.8 1.3E+02 0.0028 24.7 3.5 21 76-96 3-23 (86)
129 PRK06759 RNA polymerase factor 20.2 1.9E+02 0.0042 24.7 4.7 28 86-114 122-149 (154)
130 PF02954 HTH_8: Bacterial regu 20.2 1.6E+02 0.0035 20.7 3.5 34 73-107 5-38 (42)
131 COG2963 Transposase and inacti 20.1 2.6E+02 0.0056 23.4 5.3 46 67-113 5-51 (116)
132 cd08777 Death_RIP1 Death Domai 20.0 1E+02 0.0022 25.4 2.8 30 76-106 3-32 (86)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=1.1e-38 Score=323.08 Aligned_cols=132 Identities=83% Similarity=1.456 Sum_probs=126.9
Q ss_pred CCCCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCCCCCCCHHHHHHHHH
Q 016021 1 MGRHSCCVKQKLRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLIIS 80 (396)
Q Consensus 1 mgRw~~~lkpkikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~Lle 80 (396)
|||..||.|++++||+||+|||++|+++|++||..+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999998778999999999999999999999999999999999
Q ss_pred HHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCcCCcchhHHH
Q 016021 81 LHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKKLMKQGIDPATHKPIADI 132 (396)
Q Consensus 81 lv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk~~~s~eEd~~L~~i 132 (396)
++++||++|.+||+.|||||+++||+||+.+++++++..+..+.+.+++.+.
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~ 132 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEV 132 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCcccc
Confidence 9999999999999999999999999999999999999888888887777553
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=4e-35 Score=279.65 Aligned_cols=127 Identities=61% Similarity=1.190 Sum_probs=121.5
Q ss_pred CCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHH
Q 016021 3 RHSCCVKQKLRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLIISLH 82 (396)
Q Consensus 3 Rw~~~lkpkikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~Llelv 82 (396)
|-.||.|+++++++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 56899999999999999999999999999999999999999976899999999999999999999999999999999999
Q ss_pred HHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCcCCcchh
Q 016021 83 EVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKKLMKQGIDPATHKPI 129 (396)
Q Consensus 83 ~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk~~~s~eEd~~L 129 (396)
.+||++|..||+.|||||+++||+||+.++++++.+.+..+.+.+++
T Consensus 94 ~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~kp~ 140 (249)
T PLN03212 94 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPL 140 (249)
T ss_pred HhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCCCC
Confidence 99999999999999999999999999999999999988888776665
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=2.9e-33 Score=266.15 Aligned_cols=115 Identities=65% Similarity=1.130 Sum_probs=108.7
Q ss_pred CCCCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCch
Q 016021 10 QKLRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLIISLHEVLGNRW 89 (396)
Q Consensus 10 pkikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~Llelv~~~G~kW 89 (396)
+.+.||+||+|||++|+++|++||+++|..||+.+|++|++++||.||.|||+|+++||.||+|||++|++++..+|++|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 34568999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCcC
Q 016021 90 AQIASQLPGRTDNEIKNFWNSCLKKKLMKQGIDPA 124 (396)
Q Consensus 90 ~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk~~~s~e 124 (396)
.+||++|||||++.|||+|+..+++++.+....+.
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~ 119 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPS 119 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCC
Confidence 99999999999999999999999999887764433
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.83 E-value=3.6e-21 Score=201.79 Aligned_cols=136 Identities=21% Similarity=0.380 Sum_probs=125.9
Q ss_pred CCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccch----------------------------
Q 016021 3 RHSCCVKQKLRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCR---------------------------- 54 (396)
Q Consensus 3 Rw~~~lkpkikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCR---------------------------- 54 (396)
.|..++.|+++|..|++|||++|..+...+|..+|.+||..+|.+|+..||.
T Consensus 242 ~W~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~ 321 (939)
T KOG0049|consen 242 KWYNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVK 321 (939)
T ss_pred HHhhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHH
Confidence 3888999999999999999999999999999889999999998778888886
Q ss_pred --------------------------hhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCc-hhhhhhcCCCCCHHHHHHH
Q 016021 55 --------------------------LRWINYLRPDLKRGMFSQQEEDLIISLHEVLGNR-WAQIASQLPGRTDNEIKNF 107 (396)
Q Consensus 55 --------------------------eRW~n~L~P~lkkg~WT~EED~~Llelv~~~G~k-W~~IAk~LpGRT~~qcRnR 107 (396)
.||...|+|.+++|+||.+||.+|+.+|.+||.+ |.+|-..+|||++.|||.|
T Consensus 322 ~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~R 401 (939)
T KOG0049|consen 322 ITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRER 401 (939)
T ss_pred HhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHH
Confidence 5778889999999999999999999999999965 9999999999999999999
Q ss_pred HHHHhhhhhhhCCCCcCCcchhHHHHHHHHH
Q 016021 108 WNSCLKKKLMKQGIDPATHKPIADIIEIEVK 138 (396)
Q Consensus 108 W~~~Lkk~lkk~~~s~eEd~~L~~ive~~~k 138 (396)
|.+.|....+++.|+-.++..|+..++...+
T Consensus 402 Y~nvL~~s~K~~rW~l~edeqL~~~V~~YG~ 432 (939)
T KOG0049|consen 402 YTNVLNRSAKVERWTLVEDEQLLYAVKVYGK 432 (939)
T ss_pred HHHHHHHhhccCceeecchHHHHHHHHHHcc
Confidence 9999999999999999999999998876554
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.81 E-value=1.3e-20 Score=197.58 Aligned_cols=106 Identities=25% Similarity=0.511 Sum_probs=101.1
Q ss_pred CCCCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCCCCCCCHHHHHHHHH
Q 016021 1 MGRHSCCVKQKLRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLIIS 80 (396)
Q Consensus 1 mgRw~~~lkpkikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~Lle 80 (396)
|+||.+.|+|.+++|+||++||.+|..+|.+||.++|.+|-+.++ ||+..|||+||.|+|+...|++.||-.||+.|+.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 689999999999999999999999999999999999999999998 9999999999999999999999999999999999
Q ss_pred HHHHhC-CchhhhhhcCCCCCHHHHHHH
Q 016021 81 LHEVLG-NRWAQIASQLPGRTDNEIKNF 107 (396)
Q Consensus 81 lv~~~G-~kW~~IAk~LpGRT~~qcRnR 107 (396)
+|++|| ++|.+||..||.||..|.+.|
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rr 453 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRR 453 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHH
Confidence 999999 789999999999999554433
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.64 E-value=1e-16 Score=121.40 Aligned_cols=60 Identities=37% Similarity=0.852 Sum_probs=55.1
Q ss_pred CCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCCCCCCCHHHHHHH
Q 016021 17 WSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLI 78 (396)
Q Consensus 17 WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~L 78 (396)
||+|||++|+++|.+|| .+|..||+.|| .|++.||+.||.++|.+.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 57999999998 89999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.54 E-value=4.9e-15 Score=154.81 Aligned_cols=108 Identities=31% Similarity=0.534 Sum_probs=102.5
Q ss_pred cCCCCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCc
Q 016021 9 KQKLRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLIISLHEVLGNR 88 (396)
Q Consensus 9 kpkikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~Llelv~~~G~k 88 (396)
..+++.|.|+..||+.|..+|+++|+.+|..||..+. -|+++||+.||.++++|.++++.|+.|||..|+.+..++|..
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 4567889999999999999999999999999999998 699999999999999999999999999999999999999999
Q ss_pred hhhhhhcCCCCCHHHHHHHHHHHhhhhhh
Q 016021 89 WAQIASQLPGRTDNEIKNFWNSCLKKKLM 117 (396)
Q Consensus 89 W~~IAk~LpGRT~~qcRnRW~~~Lkk~lk 117 (396)
|..||..+++|+..+|.+||...+.....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999988877655
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.51 E-value=5.5e-15 Score=152.79 Aligned_cols=105 Identities=26% Similarity=0.614 Sum_probs=100.0
Q ss_pred CCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCchhh
Q 016021 12 LRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLIISLHEVLGNRWAQ 91 (396)
Q Consensus 12 ikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~Llelv~~~G~kW~~ 91 (396)
++.|.|+.-||+.|..+|.+||.+.|.+|++.+. .++++||+.||..+|+|.|++..|+.|||.+|+.+...+...|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 4678899999999999999999999999999998 899999999999999999999999999999999999999999999
Q ss_pred hhhcCCCCCHHHHHHHHHHHhhhhhhh
Q 016021 92 IASQLPGRTDNEIKNFWNSCLKKKLMK 118 (396)
Q Consensus 92 IAk~LpGRT~~qcRnRW~~~Lkk~lkk 118 (396)
|+..| ||+.+||-.||+.++......
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 99999 999999999999999876554
No 9
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.50 E-value=1.5e-14 Score=139.07 Aligned_cols=87 Identities=17% Similarity=0.391 Sum_probs=75.0
Q ss_pred ccccccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhC-CchhhhhhcC-CCCCHHHHHHHHHHHhhhhhhhCC
Q 016021 43 LAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLIISLHEVLG-NRWAQIASQL-PGRTDNEIKNFWNSCLKKKLMKQG 120 (396)
Q Consensus 43 ~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~Llelv~~~G-~kW~~IAk~L-pGRT~~qcRnRW~~~Lkk~lkk~~ 120 (396)
-++ .|++--|- ++++++++||+|||++|+++|++|| .+|..||+.+ ++||++|||.||.++|++.++++.
T Consensus 9 ~~~-~~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgp 80 (249)
T PLN03212 9 PVS-KKTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGG 80 (249)
T ss_pred CCC-CCCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCC
Confidence 344 55555553 3578999999999999999999999 5799999998 699999999999999999999999
Q ss_pred CCcCCcchhHHHHHHHH
Q 016021 121 IDPATHKPIADIIEIEV 137 (396)
Q Consensus 121 ~s~eEd~~L~~ive~~~ 137 (396)
|+.+|+..|.+.+....
T Consensus 81 WT~EED~lLlel~~~~G 97 (249)
T PLN03212 81 ITSDEEDLILRLHRLLG 97 (249)
T ss_pred CChHHHHHHHHHHHhcc
Confidence 99999999887765433
No 10
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.46 E-value=4.7e-14 Score=149.11 Aligned_cols=103 Identities=25% Similarity=0.553 Sum_probs=92.8
Q ss_pred CccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCC--CCCCCCHHHHHHHHHHHH-------
Q 016021 13 RKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDL--KRGMFSQQEEDLIISLHE------- 83 (396)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~l--kkg~WT~EED~~Llelv~------- 83 (396)
.+|+||+||++.|..+|.++| .+|..|++.|| |.+..||+||++|...+- +++.||.||+++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 899999999999999999999 55999999998 999999999999998874 899999999999999995
Q ss_pred Hh-------------------CCchhhhhhcCCCCCHHHHHHHHHHHhhhhhhh
Q 016021 84 VL-------------------GNRWAQIASQLPGRTDNEIKNFWNSCLKKKLMK 118 (396)
Q Consensus 84 ~~-------------------G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk 118 (396)
++ +..|..|++.+..|+..|||.+|+.++......
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n 513 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFN 513 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhh
Confidence 33 135999999889999999999999998765543
No 11
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.45 E-value=4.2e-14 Score=107.13 Aligned_cols=60 Identities=25% Similarity=0.567 Sum_probs=53.3
Q ss_pred CCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCcCCcchh
Q 016021 70 FSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKKLMKQGIDPATHKPI 129 (396)
Q Consensus 70 WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk~~~s~eEd~~L 129 (396)
||+|||++|+++|.+||++|..||+.|+.||+.+|++||...|++.+.+..|+++|+..|
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999999999999999669999999999998999999999999887654
No 12
>PLN03091 hypothetical protein; Provisional
Probab=99.42 E-value=8.5e-14 Score=142.55 Aligned_cols=73 Identities=16% Similarity=0.399 Sum_probs=67.8
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCC-chhhhhhcC-CCCCHHHHHHHHHHHhhhhhhhCCCCcCCcchhHHHHH
Q 016021 62 RPDLKRGMFSQQEEDLIISLHEVLGN-RWAQIASQL-PGRTDNEIKNFWNSCLKKKLMKQGIDPATHKPIADIIE 134 (396)
Q Consensus 62 ~P~lkkg~WT~EED~~Llelv~~~G~-kW~~IAk~L-pGRT~~qcRnRW~~~Lkk~lkk~~~s~eEd~~L~~ive 134 (396)
++.+++++||+|||++|+++|++||. +|..||+.+ +||+++|||.||.++|++.++++.|+++||..|++++.
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k 83 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHA 83 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHH
Confidence 35789999999999999999999994 799999998 59999999999999999999999999999999887764
No 13
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.42 E-value=1.1e-13 Score=132.27 Aligned_cols=76 Identities=16% Similarity=0.264 Sum_probs=68.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC-chhhhhhcCC-CCCHHHHHHHHHHHhhhhhhhCCCCcCCcchhHHHHHHHHH
Q 016021 63 PDLKRGMFSQQEEDLIISLHEVLGN-RWAQIASQLP-GRTDNEIKNFWNSCLKKKLMKQGIDPATHKPIADIIEIEVK 138 (396)
Q Consensus 63 P~lkkg~WT~EED~~Llelv~~~G~-kW~~IAk~Lp-GRT~~qcRnRW~~~Lkk~lkk~~~s~eEd~~L~~ive~~~k 138 (396)
+.+.+|+||+|||.+|+++|++||. +|..|++.++ +|+.++||.||.++|++.++++.|+++|+..+.+++...+.
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GN 82 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGN 82 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCc
Confidence 3455799999999999999999994 6999999998 99999999999999999999999999999999888755443
No 14
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.36 E-value=1.6e-13 Score=100.37 Aligned_cols=48 Identities=38% Similarity=0.735 Sum_probs=43.5
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhcc
Q 016021 14 KGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYL 61 (396)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L 61 (396)
|++||+|||++|+++|.+||.++|..||..|+.+||+.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 689999999999999999998889999999988999999999999875
No 15
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.35 E-value=1e-12 Score=96.08 Aligned_cols=46 Identities=26% Similarity=0.658 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCc-hhhhhhcCC-CCCHHHHHHHHHHHh
Q 016021 67 RGMFSQQEEDLIISLHEVLGNR-WAQIASQLP-GRTDNEIKNFWNSCL 112 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~~G~k-W~~IAk~Lp-GRT~~qcRnRW~~~L 112 (396)
|++||+|||++|++++.+||.+ |..||..|| |||..||++||++++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999988 999999999 999999999999864
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.17 E-value=4.8e-11 Score=84.07 Aligned_cols=47 Identities=40% Similarity=0.876 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhh
Q 016021 67 RGMFSQQEEDLIISLHEVLG-NRWAQIASQLPGRTDNEIKNFWNSCLK 113 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~~G-~kW~~IAk~LpGRT~~qcRnRW~~~Lk 113 (396)
+++||++||.+|+.++.+|| .+|..||..|++||+.+|++||..+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 17
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.06 E-value=2.4e-10 Score=121.44 Aligned_cols=124 Identities=23% Similarity=0.334 Sum_probs=103.2
Q ss_pred CccCCCHHHHHHHHHHHHHh----CC-------------------CCceecccccccccccccchhhhhhccCCCC-CCC
Q 016021 13 RKGLWSPEEDEKLYNYITRF----GV-------------------GCWSSVPKLAGLQRCGKSCRLRWINYLRPDL-KRG 68 (396)
Q Consensus 13 kKg~WT~EEDe~L~~lV~ky----G~-------------------~nW~~IAk~mg~gRt~kQCReRW~n~L~P~l-kkg 68 (396)
+-+.|+++||+.|...|..| |- +-|+.|.+.++ .|+.+.....-++...|-- ++|
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~~rg 385 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFENKRG 385 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCccccccC
Confidence 44789999999999999977 10 12677778888 5999888763333333322 899
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhh--hhhCCCCcCCcchhHHHHHHHHH
Q 016021 69 MFSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKK--LMKQGIDPATHKPIADIIEIEVK 138 (396)
Q Consensus 69 ~WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~--lkk~~~s~eEd~~L~~ive~~~k 138 (396)
.||+||++.|..+|.++|+.|..|++.| ||.+..||.||..+.+.. ..++.|+.+|...|+++++....
T Consensus 386 ~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~ 456 (607)
T KOG0051|consen 386 KWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIR 456 (607)
T ss_pred CCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999 999999999999999887 47889999999999999986554
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.04 E-value=1e-10 Score=82.39 Aligned_cols=48 Identities=38% Similarity=0.798 Sum_probs=44.5
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccC
Q 016021 14 KGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLR 62 (396)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~ 62 (396)
++.||++||++|+.++.+||..+|..||..++ +|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 46899999999999999999777999999999 9999999999998764
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.04 E-value=4.1e-10 Score=78.31 Aligned_cols=44 Identities=32% Similarity=0.759 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHh
Q 016021 69 MFSQQEEDLIISLHEVLG-NRWAQIASQLPGRTDNEIKNFWNSCL 112 (396)
Q Consensus 69 ~WT~EED~~Llelv~~~G-~kW~~IAk~LpGRT~~qcRnRW~~~L 112 (396)
+||++||..|+.++.++| .+|..||+.+++||..+|++||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998753
No 20
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.90 E-value=7.5e-10 Score=116.34 Aligned_cols=129 Identities=26% Similarity=0.514 Sum_probs=113.6
Q ss_pred CCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCC-------------------
Q 016021 3 RHSCCVKQKLRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRP------------------- 63 (396)
Q Consensus 3 Rw~~~lkpkikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P------------------- 63 (396)
||..+++|.++++.|+.|||+.|+.+-.++|.. |..||..++ +|+..+|.+||.+.+.+
T Consensus 61 rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~-wstia~~~d-~rt~~~~~ery~~~~~~~~s~~~s~~~~~~~f~k~d 138 (512)
T COG5147 61 RWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ-WSTIADYKD-RRTAQQCVERYVNTLEDLSSTHDSKLQRRNEFDKID 138 (512)
T ss_pred hhhhhhchhcccccccHHHHHHHHHHHHhcCch-hhhhccccC-ccchHHHHHHHHHHhhhhhccccccccchhhccccC
Confidence 888999999999999999999999999999988 999999999 99999999999854320
Q ss_pred --------------------------------------------------------------------------------
Q 016021 64 -------------------------------------------------------------------------------- 63 (396)
Q Consensus 64 -------------------------------------------------------------------------------- 63 (396)
T Consensus 139 ~f~~~~~~~~~~~~~~~~~~~~N~~~~~~~~~~rv~~~~vk~~~~~~~~~~~~~~~qem~~~~~~s~~~~~~~~~~~~~~ 218 (512)
T COG5147 139 PFNENSARRPDIYEDELLEREVNREASYRLRVPRVSKADVKPREKGEENNPDIEDLQEMKELKSASITRHLILPSKSEIN 218 (512)
T ss_pred chhhhhhhhhhhhhcccchhhhhHHHHHHHHcccchHhhhhHHhhcccccccHHHHHHHhHHHHHHHHHHHhhhhhhhhc
Confidence
Q ss_pred ---------------------------------------------------------------------CCCCCCCCHHH
Q 016021 64 ---------------------------------------------------------------------DLKRGMFSQQE 74 (396)
Q Consensus 64 ---------------------------------------------------------------------~lkkg~WT~EE 74 (396)
--.+|.||.+|
T Consensus 219 k~f~~~~~~~~e~~i~~~~~~~~~sr~q~~~~Iws~~~~~~~f~~n~~~~l~~R~~ksiy~~~rrky~~f~~~~~wt~e~ 298 (512)
T COG5147 219 KAFKKGETLALEQEINEYKEKKGLSRKQFCERIWSTDRDEDKFWPNIYKKLPYRDKKSIYKHLRRKYNIFEQRGKWTKEE 298 (512)
T ss_pred cccchhHHHHHHHHHHHHHHHhcccHHHHHhhccccccccccccchhhcccccccccchHHHHHHhhhHHhhhccCcccc
Confidence 00133799999
Q ss_pred HHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhh--hhhhCCCCcCCcchhHHHHH
Q 016021 75 EDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKK--KLMKQGIDPATHKPIADIIE 134 (396)
Q Consensus 75 D~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk--~lkk~~~s~eEd~~L~~ive 134 (396)
+..|-.++.++|..|..|.+.+ +|-+..|++||..+.+. .+++..|+.++...|..++-
T Consensus 299 ~~eL~~~~~~~~~~w~~ig~~~-~rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~ 359 (512)
T COG5147 299 EQELAKLVVEHGGSWTEIGKLL-GRMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVN 359 (512)
T ss_pred ccccccccccccchhhHhhhhh-ccCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHH
Confidence 9999999999999999999988 99999999999999999 67778999999888876554
No 21
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.90 E-value=6.5e-10 Score=77.26 Aligned_cols=45 Identities=38% Similarity=0.753 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhcc
Q 016021 16 LWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYL 61 (396)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L 61 (396)
+||++||+.|+.++.+||..+|..||+.++ +|++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHhC
Confidence 599999999999999999778999999998 899999999998753
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.10 E-value=1.8e-06 Score=90.54 Aligned_cols=70 Identities=21% Similarity=0.437 Sum_probs=64.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhhhhhhhCCCCcCCcchhHHHHH
Q 016021 65 LKRGMFSQQEEDLIISLHEVLG-NRWAQIASQLPGRTDNEIKNFWNSCLKKKLMKQGIDPATHKPIADIIE 134 (396)
Q Consensus 65 lkkg~WT~EED~~Llelv~~~G-~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk~~~s~eEd~~L~~ive 134 (396)
++.|-|+.-||++|..+|.+|| +.|.+|+..++-.|+.||+.||...+.+.+++..|+.+++..++.+..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlak 75 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAK 75 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHH
Confidence 4678999999999999999999 569999999999999999999999999999999999999988877643
No 23
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.68 E-value=2.6e-05 Score=60.08 Aligned_cols=49 Identities=10% Similarity=0.319 Sum_probs=43.0
Q ss_pred CccCCCHHHHHHHHHHHHHhCCCCc---eeccccccccc-ccccchhhhhhcc
Q 016021 13 RKGLWSPEEDEKLYNYITRFGVGCW---SSVPKLAGLQR-CGKSCRLRWINYL 61 (396)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~nW---~~IAk~mg~gR-t~kQCReRW~n~L 61 (396)
++-.||+||.++++++|+.+|.++| +.|++.|+..| |..||+.+.+.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3457999999999999999998799 99999887556 9999999988764
No 24
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.49 E-value=0.00025 Score=54.64 Aligned_cols=46 Identities=15% Similarity=0.336 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-ch---hhhhhcCC-CC-CHHHHHHHHHHHh
Q 016021 67 RGMFSQQEEDLIISLHEVLGN-RW---AQIASQLP-GR-TDNEIKNFWNSCL 112 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~~G~-kW---~~IAk~Lp-GR-T~~qcRnRW~~~L 112 (396)
+-.||+||..+++++++.+|. +| ..|++.|. .| |..||+.+...+.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 558999999999999999996 99 99999884 45 9999999987654
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.41 E-value=6.3e-05 Score=77.86 Aligned_cols=90 Identities=18% Similarity=0.364 Sum_probs=64.8
Q ss_pred CCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccC-CCCCCCCC-------CHHHHHHHHHH-H
Q 016021 12 LRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLR-PDLKRGMF-------SQQEEDLIISL-H 82 (396)
Q Consensus 12 ikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~-P~lkkg~W-------T~EED~~Llel-v 82 (396)
+-...||.+|+-+|++++..||-+||..||.++| .|+..+|+++|.+++- ..+-.-+| .+.||...-+- +
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~fv~s~~~~~~~i~~~~~~~q~e~~~~~k~~~ 148 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHFVNSPIFPLPDISLGIGVNQDEDAAMAKNRA 148 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHHhcCccccccccccccCcchHHHhhhccccc
Confidence 4466799999999999999999999999999999 9999999999988653 22222222 23344443333 2
Q ss_pred HHhCC-------------chhhhhhcCCCCCHH
Q 016021 83 EVLGN-------------RWAQIASQLPGRTDN 102 (396)
Q Consensus 83 ~~~G~-------------kW~~IAk~LpGRT~~ 102 (396)
..++. .=.+|+..||+|.+-
T Consensus 149 ~~~~~~~~~pr~p~~~~p~~~e~~gyMp~R~dF 181 (438)
T KOG0457|consen 149 EPFQPTDLVPRKPGVSNPLRREISGYMPGRLDF 181 (438)
T ss_pred ccCCCCCCCCCCCCCCCchHHHHhhhCccchhh
Confidence 22322 145888889998753
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.28 E-value=0.00035 Score=72.52 Aligned_cols=49 Identities=22% Similarity=0.428 Sum_probs=44.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHh
Q 016021 64 DLKRGMFSQQEEDLIISLHEVLG-NRWAQIASQLPGRTDNEIKNFWNSCL 112 (396)
Q Consensus 64 ~lkkg~WT~EED~~Llelv~~~G-~kW~~IAk~LpGRT~~qcRnRW~~~L 112 (396)
.+-...||.+|+.+||+++..|| ++|..||.++..|+..+|+.+|.++.
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 34566899999999999999999 89999999999999999999997553
No 27
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.14 E-value=0.00048 Score=63.29 Aligned_cols=51 Identities=18% Similarity=0.353 Sum_probs=44.9
Q ss_pred CCCCCCHHHHHHHHHHHHHh---CC----chhhhhhcCCCCCHHHHHHHHHHHhhhhhh
Q 016021 66 KRGMFSQQEEDLIISLHEVL---GN----RWAQIASQLPGRTDNEIKNFWNSCLKKKLM 117 (396)
Q Consensus 66 kkg~WT~EED~~Llelv~~~---G~----kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lk 117 (396)
+...||.|||.+|.+.|-.| |. -...+++.| +||+..|.=||+.++|+.+.
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHH
Confidence 45689999999999999887 32 289999999 99999999999999998765
No 28
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.99 E-value=0.00056 Score=54.97 Aligned_cols=51 Identities=29% Similarity=0.502 Sum_probs=36.0
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------chhhhhhcC----CCCCHHHHHHHHHHHhhhhhh
Q 016021 67 RGMFSQQEEDLIISLHEV------LG--N------RWAQIASQL----PGRTDNEIKNFWNSCLKKKLM 117 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~------~G--~------kW~~IAk~L----pGRT~~qcRnRW~~~Lkk~lk 117 (396)
|..||.+|...||+++.+ ++ + -|..||..| ..||+.||++||.++.+...+
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 357999999999999877 21 1 399999887 369999999999987766543
No 29
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=96.95 E-value=0.0012 Score=62.62 Aligned_cols=100 Identities=22% Similarity=0.396 Sum_probs=71.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceecccccc--cccccccchhhhhhcc-CCCC--------------------CCCCCCH
Q 016021 16 LWSPEEDEKLYNYITRFGVGCWSSVPKLAG--LQRCGKSCRLRWINYL-RPDL--------------------KRGMFSQ 72 (396)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg--~gRt~kQCReRW~n~L-~P~l--------------------kkg~WT~ 72 (396)
+|++++|-+|+.+|..-. +-..|+.-+. ..-|-+.+.+||+..| +|.+ .+.+||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 699999999999999743 3566655443 2456677788998765 3322 3558999
Q ss_pred HHHHHHHHHHHHhCC---chhhhhh----cC-CCCCHHHHHHHHHHHhhhhhh
Q 016021 73 QEEDLIISLHEVLGN---RWAQIAS----QL-PGRTDNEIKNFWNSCLKKKLM 117 (396)
Q Consensus 73 EED~~Llelv~~~G~---kW~~IAk----~L-pGRT~~qcRnRW~~~Lkk~lk 117 (396)
+|+++|......... .+.+|=. .| ++||++++..+|..+.+..+.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLL 131 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchh
Confidence 999999997665543 3666632 23 789999999999976665544
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.72 E-value=0.0019 Score=68.81 Aligned_cols=45 Identities=18% Similarity=0.371 Sum_probs=41.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHH
Q 016021 66 KRGMFSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNS 110 (396)
Q Consensus 66 kkg~WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~ 110 (396)
.++.||++|..+|++++..||.+|.+||.++.+||..||-.++..
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLR 296 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHh
Confidence 456899999999999999999999999999999999999988853
No 31
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.66 E-value=0.0025 Score=50.40 Aligned_cols=51 Identities=14% Similarity=0.333 Sum_probs=33.0
Q ss_pred CCCCCHHHHHHHHHHHHHhC--------Cc-hhhhhhcCC-CCCHHHHHHHHHHHhhhhhh
Q 016021 67 RGMFSQQEEDLIISLHEVLG--------NR-WAQIASQLP-GRTDNEIKNFWNSCLKKKLM 117 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~~G--------~k-W~~IAk~Lp-GRT~~qcRnRW~~~Lkk~lk 117 (396)
|.+||.|||..|++.|.++. ++ |.++++.-+ .+|-...|+||...|+.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 46899999999999997652 22 999999987 89999999999988876543
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.61 E-value=0.0008 Score=70.51 Aligned_cols=46 Identities=26% Similarity=0.515 Sum_probs=42.1
Q ss_pred CccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhc
Q 016021 13 RKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINY 60 (396)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~ 60 (396)
+...||.+|..+|++.|+.||. +|.+||.++| +|+.-||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 5668999999999999999995 5999999999 99999999998753
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.60 E-value=0.0021 Score=67.53 Aligned_cols=45 Identities=20% Similarity=0.316 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHH
Q 016021 67 RGMFSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSC 111 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~ 111 (396)
...||.+|..+|++.++.||..|.+||+++..||..||--||-++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 448999999999999999999999999999999999999999754
No 34
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.52 E-value=0.0016 Score=69.26 Aligned_cols=46 Identities=22% Similarity=0.533 Sum_probs=42.0
Q ss_pred CccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhc
Q 016021 13 RKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINY 60 (396)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~ 60 (396)
.++.||.+|+-+|+++|++||. +|.+||.++| +|+..||-.++.+.
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 4677999999999999999994 5999999999 99999999998763
No 35
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.31 E-value=0.004 Score=57.84 Aligned_cols=53 Identities=17% Similarity=0.318 Sum_probs=44.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCc-------hhhhhhcCCCCCHHHHHHHHHHHhhhhhhh
Q 016021 65 LKRGMFSQQEEDLIISLHEVLGNR-------WAQIASQLPGRTDNEIKNFWNSCLKKKLMK 118 (396)
Q Consensus 65 lkkg~WT~EED~~Llelv~~~G~k-------W~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk 118 (396)
.+...||.|||.+|-+.|..|+.. ...++..| +||..+|.-||+.++++....
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Yee 62 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQE 62 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHHH
Confidence 356789999999999999888732 66677777 999999999999999988653
No 36
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.11 E-value=0.0016 Score=52.28 Aligned_cols=46 Identities=24% Similarity=0.549 Sum_probs=32.3
Q ss_pred cCCCHHHHHHHHHHHHH--h----C--CC-----Cceeccccc---ccccccccchhhhhhc
Q 016021 15 GLWSPEEDEKLYNYITR--F----G--VG-----CWSSVPKLA---GLQRCGKSCRLRWINY 60 (396)
Q Consensus 15 g~WT~EEDe~L~~lV~k--y----G--~~-----nW~~IAk~m---g~gRt~kQCReRW~n~ 60 (396)
..||.+|...|++++.. + + .. -|..||..| |..|++.||+.||.+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 46999999999999987 2 1 11 399999866 4679999999999874
No 37
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.06 E-value=0.0015 Score=60.17 Aligned_cols=50 Identities=30% Similarity=0.618 Sum_probs=41.4
Q ss_pred CCccCCCHHHHHHHHHHHHHh---C-CC--CceecccccccccccccchhhhhhccCC
Q 016021 12 LRKGLWSPEEDEKLYNYITRF---G-VG--CWSSVPKLAGLQRCGKSCRLRWINYLRP 63 (396)
Q Consensus 12 ikKg~WT~EEDe~L~~lV~ky---G-~~--nW~~IAk~mg~gRt~kQCReRW~n~L~P 63 (396)
.|...||.|||.+|.+.|-+| | ++ ...+|++.++ ||+.-|.-||..++..
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHHH
Confidence 467789999999999999998 2 11 3677888876 9999999999988763
No 38
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=95.94 E-value=0.0025 Score=50.43 Aligned_cols=52 Identities=19% Similarity=0.328 Sum_probs=32.7
Q ss_pred ccCCCHHHHHHHHHHHHHhCC--------CCceecccccccccccccchhhhhhccCCCC
Q 016021 14 KGLWSPEEDEKLYNYITRFGV--------GCWSSVPKLAGLQRCGKSCRLRWINYLRPDL 65 (396)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~--------~nW~~IAk~mg~gRt~kQCReRW~n~L~P~l 65 (396)
+.+||.|||+.|+..|..+.. .=|.++++.-++.++-.+-|+||.+.|.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 457999999999999976531 1299998876657888888999999987643
No 39
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.92 E-value=0.02 Score=45.28 Aligned_cols=51 Identities=27% Similarity=0.499 Sum_probs=41.5
Q ss_pred CCCCCHHHHHHHHHHHHHhC----C-------------chhhhhhcC-----CCCCHHHHHHHHHHHhhhhhh
Q 016021 67 RGMFSQQEEDLIISLHEVLG----N-------------RWAQIASQL-----PGRTDNEIKNFWNSCLKKKLM 117 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~~G----~-------------kW~~IAk~L-----pGRT~~qcRnRW~~~Lkk~lk 117 (396)
+..||.+|...|++++.+|. + -|..|+..| +.||..+||.+|.++.....+
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk 74 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKK 74 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 45799999999999998873 1 299999886 359999999999988765543
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.13 E-value=0.068 Score=54.31 Aligned_cols=47 Identities=28% Similarity=0.473 Sum_probs=42.9
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhh
Q 016021 67 RGMFSQQEEDLIISLHEVLG-NRWAQIASQLPGRTDNEIKNFWNSCLK 113 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~~G-~kW~~IAk~LpGRT~~qcRnRW~~~Lk 113 (396)
...|+.+|+.+|++....+| ++|..||.++..|+...||.+|..+..
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 44799999999999999999 899999999999999999999976654
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.64 E-value=0.011 Score=59.89 Aligned_cols=47 Identities=17% Similarity=0.518 Sum_probs=44.3
Q ss_pred cCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccC
Q 016021 15 GLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLR 62 (396)
Q Consensus 15 g~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~ 62 (396)
--|+..|+-+|+++..-.|-+||.-||..+| .|+...|+++|.+++.
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 3599999999999999999999999999999 9999999999998765
No 42
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.49 E-value=0.064 Score=61.81 Aligned_cols=101 Identities=12% Similarity=0.285 Sum_probs=76.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceecccccccccccccchh-------hhhh-----------------------------
Q 016021 16 LWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRL-------RWIN----------------------------- 59 (396)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCRe-------RW~n----------------------------- 59 (396)
.|+.-+=..++.+..+||..+-..||..|. +++...++. ||..
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 388888888888999999888899999887 777766652 2111
Q ss_pred ------------c-c-CCCCCCCCCCHHHHHHHHHHHHHhC-CchhhhhhcC------------CCCCHHHHHHHHHHHh
Q 016021 60 ------------Y-L-RPDLKRGMFSQQEEDLIISLHEVLG-NRWAQIASQL------------PGRTDNEIKNFWNSCL 112 (396)
Q Consensus 60 ------------~-L-~P~lkkg~WT~EED~~Llelv~~~G-~kW~~IAk~L------------pGRT~~qcRnRW~~~L 112 (396)
. + .+..++..+|+|||+.|+-++.+|| .+|.+|-..+ ..||+..|..|...++
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 0 0 1233445699999999999999999 6799995432 4799999999999888
Q ss_pred hhhhh
Q 016021 113 KKKLM 117 (396)
Q Consensus 113 kk~lk 117 (396)
+-..+
T Consensus 985 ~~~~~ 989 (1033)
T PLN03142 985 RLIEK 989 (1033)
T ss_pred HHHHH
Confidence 77643
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=94.39 E-value=0.011 Score=55.03 Aligned_cols=50 Identities=26% Similarity=0.486 Sum_probs=38.9
Q ss_pred CCCccCCCHHHHHHHHHHHHHhCCCC------ceecccccccccccccchhhhhhccC
Q 016021 11 KLRKGLWSPEEDEKLYNYITRFGVGC------WSSVPKLAGLQRCGKSCRLRWINYLR 62 (396)
Q Consensus 11 kikKg~WT~EEDe~L~~lV~kyG~~n------W~~IAk~mg~gRt~kQCReRW~n~L~ 62 (396)
+.++..||.|||.+|.+.|-+|+... -..++..+ +|++.+|..||..++.
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L--~rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL--KRTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH--hhhHHHHHhHHHHHHH
Confidence 35778899999999999999986433 34444555 4999999999976665
No 44
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.32 E-value=0.011 Score=46.77 Aligned_cols=49 Identities=24% Similarity=0.376 Sum_probs=39.2
Q ss_pred CccCCCHHHHHHHHHHHHHhCC----------------CCceecccccc----cccccccchhhhhhcc
Q 016021 13 RKGLWSPEEDEKLYNYITRFGV----------------GCWSSVPKLAG----LQRCGKSCRLRWINYL 61 (396)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~----------------~nW~~IAk~mg----~gRt~kQCReRW~n~L 61 (396)
|+..||.+|.+.|+++|.+|.. .-|..|+..+. ..|+..||+.+|.+..
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 4568999999999999998821 23999997552 2699999999998854
No 45
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=93.25 E-value=0.12 Score=53.61 Aligned_cols=87 Identities=22% Similarity=0.316 Sum_probs=66.1
Q ss_pred CCceecccccccccccccchhhhhhccCCC-------------------------CCCCCCCHHHHHHHHHHHHHhCCch
Q 016021 35 GCWSSVPKLAGLQRCGKSCRLRWINYLRPD-------------------------LKRGMFSQQEEDLIISLHEVLGNRW 89 (396)
Q Consensus 35 ~nW~~IAk~mg~gRt~kQCReRW~n~L~P~-------------------------lkkg~WT~EED~~Llelv~~~G~kW 89 (396)
..|..+.-..+ .|...-...+|.+..++. +....||.+|-+-|+++++.|.-+|
T Consensus 74 ~~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf 152 (445)
T KOG2656|consen 74 RPWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRF 152 (445)
T ss_pred CCceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeE
Confidence 35777765555 566666667776653321 1234699999999999999999999
Q ss_pred hhhhhc-----CCC-CCHHHHHHHHHHHhhhhhhhCCCC
Q 016021 90 AQIASQ-----LPG-RTDNEIKNFWNSCLKKKLMKQGID 122 (396)
Q Consensus 90 ~~IAk~-----LpG-RT~~qcRnRW~~~Lkk~lkk~~~s 122 (396)
-.||.. ++. ||-..+|+||+.+.++.++....+
T Consensus 153 ~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 153 FVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred EEEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 999977 555 999999999999998877655433
No 46
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.61 E-value=0.2 Score=50.46 Aligned_cols=51 Identities=20% Similarity=0.283 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CCchhhhhhcC----CCCCHHHHHHHHHHHhhhhhh
Q 016021 67 RGMFSQQEEDLIISLHEVL----------GNRWAQIASQL----PGRTDNEIKNFWNSCLKKKLM 117 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~~----------G~kW~~IAk~L----pGRT~~qcRnRW~~~Lkk~lk 117 (396)
...|+.+|-..||++..+. +.-|..||+.+ .-||+.|||+||.++.++..+
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~ 118 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKK 118 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Confidence 3689999999999988653 23499999965 349999999999988877544
No 47
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=92.00 E-value=0.29 Score=43.02 Aligned_cols=53 Identities=21% Similarity=0.440 Sum_probs=41.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----chhhhhhcC------------CCCCHHHHHHHHHHHhhhhh
Q 016021 64 DLKRGMFSQQEEDLIISLHEVLGN----RWAQIASQL------------PGRTDNEIKNFWNSCLKKKL 116 (396)
Q Consensus 64 ~lkkg~WT~EED~~Llelv~~~G~----kW~~IAk~L------------pGRT~~qcRnRW~~~Lkk~l 116 (396)
+.++..||++||.-|+-++.+||- .|..|...+ ..||+..|..|...+++-..
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 556778999999999999999995 699887553 35999999999998887543
No 48
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=91.73 E-value=0.33 Score=53.93 Aligned_cols=55 Identities=15% Similarity=0.266 Sum_probs=41.4
Q ss_pred CCCcccccCCCC---ccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhh
Q 016021 2 GRHSCCVKQKLR---KGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWI 58 (396)
Q Consensus 2 gRw~~~lkpkik---Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~ 58 (396)
.||.|+.-...+ ...||+.|-.+..+++-.|. ++.-.|++++. +++.+||-+-|.
T Consensus 604 ~~~~~h~la~Y~Y~gSd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~-~KtVaqCVeyYY 661 (907)
T KOG4167|consen 604 VRLKCHPLANYHYAGSDKWTPLERKLFNKALYTYS-KDFIFVQKMVK-SKTVAQCVEYYY 661 (907)
T ss_pred CCccccccceeeecCcccccHHHHHHHHHHHHHhc-ccHHHHHHHhc-cccHHHHHHHHH
Confidence 366666554432 45688888888888888887 66888888888 888888877654
No 49
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=91.44 E-value=0.43 Score=38.66 Aligned_cols=46 Identities=26% Similarity=0.541 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------chhhhhhcC---CC--CCHHHHHHHHHHHhhh
Q 016021 69 MFSQQEEDLIISLHEVL---GN----------RWAQIASQL---PG--RTDNEIKNFWNSCLKK 114 (396)
Q Consensus 69 ~WT~EED~~Llelv~~~---G~----------kW~~IAk~L---pG--RT~~qcRnRW~~~Lkk 114 (396)
.||+++++.|++++.+. |+ .|..|++.| +| .+..||++||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 59999999999998653 21 299999887 33 5789999999876655
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=89.31 E-value=1 Score=47.80 Aligned_cols=50 Identities=16% Similarity=0.297 Sum_probs=43.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 66 KRGMFSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 66 kkg~WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
-...||.||-.++-.+...||.+..+|.+.||.|+-..+...|....+..
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~ 235 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTR 235 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHh
Confidence 34579999999999999999999999999999999999999887665543
No 51
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=89.13 E-value=1.5 Score=48.93 Aligned_cols=43 Identities=7% Similarity=0.148 Sum_probs=39.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHH
Q 016021 68 GMFSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNS 110 (396)
Q Consensus 68 g~WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~ 110 (396)
..||+.|-.+.-+++..|..++..|++.++++|-.||-..|+.
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 4799999999999999999999999999999999999887653
No 52
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=84.47 E-value=1.4 Score=45.94 Aligned_cols=46 Identities=22% Similarity=0.299 Sum_probs=42.7
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 69 MFSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 69 ~WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
+||.+|-++..++....|..+..|+..+|.|...|||-+|.+--+.
T Consensus 367 ~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 367 RWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred cccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 7999999999999999999999999999999999999999865443
No 53
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=83.67 E-value=2.5 Score=30.88 Aligned_cols=42 Identities=26% Similarity=0.332 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 72 QQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 72 ~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
+++++.++.++...|-.|.+||+.+ |.+...|+.+....+++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 4678888889899999999999999 99999999988766553
No 54
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=82.06 E-value=0.63 Score=46.83 Aligned_cols=46 Identities=26% Similarity=0.413 Sum_probs=37.0
Q ss_pred cCCCHHHHHHHHHHHHHh---------CCCCceecccc---cccccccccchhhhhhc
Q 016021 15 GLWSPEEDEKLYNYITRF---------GVGCWSSVPKL---AGLQRCGKSCRLRWINY 60 (396)
Q Consensus 15 g~WT~EEDe~L~~lV~ky---------G~~nW~~IAk~---mg~gRt~kQCReRW~n~ 60 (396)
..|+.+|-..|+++..+. ....|..||+. .|.-|++.||+.||.+.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl 112 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENL 112 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 679999999999998754 12349999983 34579999999999874
No 55
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=78.33 E-value=1.1 Score=36.88 Aligned_cols=31 Identities=29% Similarity=0.588 Sum_probs=17.7
Q ss_pred CCCCccCCCHHHHHHH--------HHHHHHhCCCCceecccc
Q 016021 10 QKLRKGLWSPEEDEKL--------YNYITRFGVGCWSSVPKL 43 (396)
Q Consensus 10 pkikKg~WT~EEDe~L--------~~lV~kyG~~nW~~IAk~ 43 (396)
|.-..|-||+|+|+.| .+++++|| +..|+++
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~R 81 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIERR 81 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHHH
Confidence 3445788999999999 45667787 5556543
No 56
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=74.59 E-value=2.2 Score=37.48 Aligned_cols=34 Identities=26% Similarity=0.541 Sum_probs=27.7
Q ss_pred CCCccCCCHHHHHHHHHHHHHhCC---CCceeccccc
Q 016021 11 KLRKGLWSPEEDEKLYNYITRFGV---GCWSSVPKLA 44 (396)
Q Consensus 11 kikKg~WT~EEDe~L~~lV~kyG~---~nW~~IAk~m 44 (396)
..++..||.+||.-|+-++.+||- +.|..|-..+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 556778999999999999999998 7899997643
No 57
>smart00595 MADF subfamily of SANT domain.
Probab=73.76 E-value=4.9 Score=32.16 Aligned_cols=26 Identities=31% Similarity=0.625 Sum_probs=22.1
Q ss_pred hhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 89 WAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 89 W~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
|..||..| |-+..+|+.+|+++...-
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~y 55 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 99999999 459999999998776543
No 58
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=70.20 E-value=9.5 Score=42.13 Aligned_cols=53 Identities=9% Similarity=0.368 Sum_probs=43.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhh----------cCCCCCHHHHHHHHHHHhhhhhhh
Q 016021 66 KRGMFSQQEEDLIISLHEVLGNRWAQIAS----------QLPGRTDNEIKNFWNSCLKKKLMK 118 (396)
Q Consensus 66 kkg~WT~EED~~Llelv~~~G~kW~~IAk----------~LpGRT~~qcRnRW~~~Lkk~lkk 118 (396)
+|..||-+|+.-...+++++|.++.+|-+ ...-+|..|+|.+|+..+++..+-
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~ 149 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKL 149 (782)
T ss_pred cccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhh
Confidence 36689999999999999999999998822 233468889999999888776543
No 59
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=68.80 E-value=15 Score=37.71 Aligned_cols=50 Identities=26% Similarity=0.478 Sum_probs=39.0
Q ss_pred CCCCCHHHHHHHHHHHHHh-CCc---hhhhhhcCCCCCHHHHHHHHHHHhhhhh
Q 016021 67 RGMFSQQEEDLIISLHEVL-GNR---WAQIASQLPGRTDNEIKNFWNSCLKKKL 116 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~~-G~k---W~~IAk~LpGRT~~qcRnRW~~~Lkk~l 116 (396)
-..||.-|...|+++.+.. |.. -.+|++.++||+..+|++.-..++.+.+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rva 74 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVA 74 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHH
Confidence 3479999999999988765 433 5688999999999999987666555543
No 60
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=64.95 E-value=14 Score=26.74 Aligned_cols=42 Identities=26% Similarity=0.361 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 73 QEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 73 EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
++++.++.+.-..|-.+.+||+.+ |-|...|+.+....+++-
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKKL 48 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHHh
Confidence 456666666666677899999999 889999999888777653
No 61
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=63.66 E-value=2.8 Score=30.22 Aligned_cols=38 Identities=18% Similarity=0.246 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhCCCCceecccccccccccccchhhhhh
Q 016021 20 EEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWIN 59 (396)
Q Consensus 20 EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n 59 (396)
+=|.+|+.+.++-|...|.+||+.+| =++..|+.|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 45889999999999889999999998 888899998764
No 62
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=63.39 E-value=4.1 Score=42.68 Aligned_cols=44 Identities=27% Similarity=0.462 Sum_probs=39.9
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhh
Q 016021 14 KGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWIN 59 (396)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n 59 (396)
--+||.+|-++..++....|.. ...|+..++ +|..+|++.+|.+
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGtd-F~LIs~lfP-~R~RkqIKaKfi~ 408 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGTD-FSLISSLFP-NRERKQIKAKFIK 408 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcch-HHHHHHhcC-chhHHHHHHHHHH
Confidence 3479999999999999999954 999999998 9999999998875
No 63
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=63.36 E-value=10 Score=33.82 Aligned_cols=45 Identities=13% Similarity=0.127 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhhhhhhh
Q 016021 73 QEEDLIISLHEVLG-NRWAQIASQLPGRTDNEIKNFWNSCLKKKLMK 118 (396)
Q Consensus 73 EED~~Llelv~~~G-~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk 118 (396)
+-|.+|+++..+-| ..|.+||+.+ |-+...|+.|++.+....+.+
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 57888998888887 4699999999 999999999999888776554
No 64
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=62.51 E-value=3.4 Score=36.90 Aligned_cols=47 Identities=9% Similarity=0.063 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCCC
Q 016021 19 PEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKR 67 (396)
Q Consensus 19 ~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkk 67 (396)
.+-|.+|+.+.++.|...|.+||+.+| -+...|+.|+.+....++-+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCee
Confidence 467999999999999889999999997 99999999999877665443
No 65
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=62.12 E-value=6.1 Score=31.91 Aligned_cols=44 Identities=20% Similarity=0.468 Sum_probs=31.3
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------Cceecccccc----cccccccchhhhhh
Q 016021 16 LWSPEEDEKLYNYITRF---GVG---------CWSSVPKLAG----LQRCGKSCRLRWIN 59 (396)
Q Consensus 16 ~WT~EEDe~L~~lV~ky---G~~---------nW~~IAk~mg----~gRt~kQCReRW~n 59 (396)
+||+++++.|++++... |.. .|..|++.+. ...+..||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999988654 211 2777876553 34567788888765
No 66
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=61.82 E-value=15 Score=26.48 Aligned_cols=38 Identities=18% Similarity=0.342 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHhCC-chhhhhhcCCCCCHHHHHHHHHHH
Q 016021 73 QEEDLIISLHEVLGN-RWAQIASQLPGRTDNEIKNFWNSC 111 (396)
Q Consensus 73 EED~~Llelv~~~G~-kW~~IAk~LpGRT~~qcRnRW~~~ 111 (396)
+=|.+|+.+...-|. .|.+||+.+ |=|...|..|+..+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 457888888888774 599999999 99999999998754
No 67
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=60.82 E-value=3 Score=37.77 Aligned_cols=47 Identities=17% Similarity=0.118 Sum_probs=40.9
Q ss_pred CHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCC
Q 016021 18 SPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLK 66 (396)
Q Consensus 18 T~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lk 66 (396)
-.+-|.+|+.+.++.|.-.|.+||+.+| -++..|+.|+.+..+.++-
T Consensus 12 lD~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 12 LDRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 4677999999999999889999999998 8899999999988766654
No 68
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=59.57 E-value=17 Score=34.85 Aligned_cols=44 Identities=20% Similarity=0.237 Sum_probs=35.3
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhhhcC---CCCCHHHHHHHHHHHhh
Q 016021 69 MFSQQEEDLIISLHEVLGNRWAQIASQL---PGRTDNEIKNFWNSCLK 113 (396)
Q Consensus 69 ~WT~EED~~Llelv~~~G~kW~~IAk~L---pGRT~~qcRnRW~~~Lk 113 (396)
.|++++|-.|+.+|.. |+.-..|+..+ -.-|-..|..||+.+|-
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 5999999999999865 66777776654 33588999999999874
No 69
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=57.55 E-value=20 Score=30.51 Aligned_cols=39 Identities=23% Similarity=0.339 Sum_probs=28.9
Q ss_pred HHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 76 DLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 76 ~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
..++.+.-..|-.+.+||+.+ |.+...|+.+....+++-
T Consensus 119 r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~L 157 (161)
T TIGR02985 119 RKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKEL 157 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 333344334577899999999 999999999998766543
No 70
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=55.55 E-value=13 Score=33.58 Aligned_cols=46 Identities=7% Similarity=0.091 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHhCC-chhhhhhcCCCCCHHHHHHHHHHHhhhhhhh
Q 016021 72 QQEEDLIISLHEVLGN-RWAQIASQLPGRTDNEIKNFWNSCLKKKLMK 118 (396)
Q Consensus 72 ~EED~~Llelv~~~G~-kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk 118 (396)
.+-|.+|+.+..+-|. .|.+||+.+ |-+...|+.|++.+.+..+.+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 4678888888888774 699999999 999999999999888877643
No 71
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=52.19 E-value=42 Score=35.32 Aligned_cols=42 Identities=17% Similarity=0.237 Sum_probs=37.6
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhhh-cCCCCCHHHHHHHHHH
Q 016021 69 MFSQQEEDLIISLHEVLGNRWAQIAS-QLPGRTDNEIKNFWNS 110 (396)
Q Consensus 69 ~WT~EED~~Llelv~~~G~kW~~IAk-~LpGRT~~qcRnRW~~ 110 (396)
.|+++|-+..-+-++.||+++..|.+ .++.|+--.|-..|+.
T Consensus 279 ~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred cCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHH
Confidence 79999999999999999999999964 5899999999887753
No 72
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=50.87 E-value=31 Score=27.90 Aligned_cols=38 Identities=16% Similarity=0.324 Sum_probs=27.6
Q ss_pred HHHHHHHHhC--------CchhhhhhcCCC---CC--HHHHHHHHHHHhhh
Q 016021 77 LIISLHEVLG--------NRWAQIASQLPG---RT--DNEIKNFWNSCLKK 114 (396)
Q Consensus 77 ~Llelv~~~G--------~kW~~IAk~LpG---RT--~~qcRnRW~~~Lkk 114 (396)
.|..+|.+.| ++|..||+.|.. -+ ..++|..|..+|.+
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 4677777777 359999999822 22 36889999888754
No 73
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=50.31 E-value=15 Score=30.14 Aligned_cols=17 Identities=18% Similarity=0.667 Sum_probs=10.1
Q ss_pred CCCCCCCCCHHHHHHHH
Q 016021 63 PDLKRGMFSQQEEDLII 79 (396)
Q Consensus 63 P~lkkg~WT~EED~~Ll 79 (396)
|....|-||+|+|..|.
T Consensus 43 P~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT---HHHHHHHT
T ss_pred CCCCCCCcCHHHHHHHH
Confidence 55678899999999994
No 74
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=46.38 E-value=38 Score=27.70 Aligned_cols=39 Identities=18% Similarity=0.347 Sum_probs=28.6
Q ss_pred HHHHHHHHhC--------CchhhhhhcCCC-----CCHHHHHHHHHHHhhhh
Q 016021 77 LIISLHEVLG--------NRWAQIASQLPG-----RTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 77 ~Llelv~~~G--------~kW~~IAk~LpG-----RT~~qcRnRW~~~Lkk~ 115 (396)
+|..+|.+.| +.|..||+.|.- ....++|..|..+|.+-
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 4667777777 359999999832 24678899998888663
No 75
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=45.69 E-value=41 Score=27.61 Aligned_cols=35 Identities=26% Similarity=0.253 Sum_probs=26.4
Q ss_pred HHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 80 SLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 80 elv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
.+....|..+.+||+.+ |-+...|+.+....+++.
T Consensus 120 ~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~kl 154 (158)
T TIGR02937 120 VLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKKL 154 (158)
T ss_pred hhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 33334578899999999 679999998888766553
No 76
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=45.04 E-value=24 Score=38.84 Aligned_cols=48 Identities=19% Similarity=0.283 Sum_probs=43.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHh
Q 016021 65 LKRGMFSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCL 112 (396)
Q Consensus 65 lkkg~WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~L 112 (396)
...++|+.+|-.+.-.+..+.|.+...|+..+|+|...|||.+|..--
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE 454 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEE 454 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhh
Confidence 345689999999999999999999999999999999999999997543
No 77
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=42.05 E-value=25 Score=32.39 Aligned_cols=40 Identities=23% Similarity=0.229 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHH
Q 016021 69 MFSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWN 109 (396)
Q Consensus 69 ~WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~ 109 (396)
.||+|+.++|.+|..+ |-.=.+||+.|.|.|.+.|.-+-+
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhhh
Confidence 5999999999988754 888999999997799998876654
No 78
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=41.91 E-value=20 Score=37.83 Aligned_cols=48 Identities=21% Similarity=0.382 Sum_probs=40.9
Q ss_pred CCccCCCHHHHHHHHHHHHHhCCCCceecccc-----cccccccccchhhhhhc
Q 016021 12 LRKGLWSPEEDEKLYNYITRFGVGCWSSVPKL-----AGLQRCGKSCRLRWINY 60 (396)
Q Consensus 12 ikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~-----mg~gRt~kQCReRW~n~ 60 (396)
++-..||++|-+-|.++.++|.-+ |-.||.+ .+..||--..++||..+
T Consensus 128 l~dn~WskeETD~LF~lck~fDLR-f~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFDLR-FFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hccccccHHHHHHHHHHHHhcCee-EEEEeeccchhhccccccHHHHHHHHHHH
Confidence 344679999999999999999976 9999987 56459999999999754
No 79
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=41.49 E-value=3.9e+02 Score=28.58 Aligned_cols=73 Identities=16% Similarity=0.199 Sum_probs=46.2
Q ss_pred CCCCccCCCHHHHHHHHHHHHHhCCCCceeccc----ccccccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHh
Q 016021 10 QKLRKGLWSPEEDEKLYNYITRFGVGCWSSVPK----LAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLIISLHEVL 85 (396)
Q Consensus 10 pkikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk----~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~Llelv~~~ 85 (396)
.+..-|.|+++=|+...++...|.+..=++|-- .|- ||+ .||..+-++
T Consensus 72 ~~daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmy-GRN---------------------------ELIarYIKl 123 (455)
T KOG3841|consen 72 QRDAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMY-GRN---------------------------ELIARYIKL 123 (455)
T ss_pred ccccccccChhHHHHHHHHHhhcCCCCceeEEEccCcccc-chH---------------------------HHHHHHHHH
Confidence 345678999999999999999987653344411 111 122 133332222
Q ss_pred CCchhhhhhcCCCCCHHHHHHHHHHHhhhhhhh
Q 016021 86 GNRWAQIASQLPGRTDNEIKNFWNSCLKKKLMK 118 (396)
Q Consensus 86 G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk 118 (396)
+.-..||.+||-.+-..+.|++.++
T Consensus 124 --------rtgktRTrKQVSSHIQVlarrk~re 148 (455)
T KOG3841|consen 124 --------RTGKTRTRKQVSSHIQVLARRKLRE 148 (455)
T ss_pred --------hcCCchhHHHHHHHHHHHHHHHHHH
Confidence 1113799999999988888777664
No 80
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=40.19 E-value=90 Score=32.29 Aligned_cols=86 Identities=16% Similarity=0.253 Sum_probs=58.9
Q ss_pred ccCCCHHHHHHHHHHHHHhCCC---CceecccccccccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHH-h----
Q 016021 14 KGLWSPEEDEKLYNYITRFGVG---CWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLIISLHEV-L---- 85 (396)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~---nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~Llelv~~-~---- 85 (396)
-..||.-|...|+.+.+....+ +-.+|++.+. +|+..++++- .+.|+ ++.+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~f-l~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRDF-LQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHHH-HHHHH------------HHHHHHHHHHhccccc
Confidence 4579999999999998866333 3446777887 8999888763 33343 2334444444 1
Q ss_pred -CCc------------hhhhhhcCCCCCHHHHHHHHHHHhh
Q 016021 86 -GNR------------WAQIASQLPGRTDNEIKNFWNSCLK 113 (396)
Q Consensus 86 -G~k------------W~~IAk~LpGRT~~qcRnRW~~~Lk 113 (396)
|.+ |..+|+.+.|.-...+---|-.+|.
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 211 9999999988888888777766553
No 81
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=39.61 E-value=35 Score=28.22 Aligned_cols=29 Identities=28% Similarity=0.557 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhCCchhhhhhcCCCCCHHHH
Q 016021 75 EDLIISLHEVLGNRWAQIASQLPGRTDNEI 104 (396)
Q Consensus 75 D~~Llelv~~~G~kW~~IAk~LpGRT~~qc 104 (396)
|+.|..+....|..|..+|.+| |=|..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5678889999999999999998 5554443
No 82
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=39.01 E-value=60 Score=28.22 Aligned_cols=34 Identities=18% Similarity=0.214 Sum_probs=25.7
Q ss_pred HHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 81 LHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 81 lv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
+....|-.+.+||+.+ |.+...|+.+....+++.
T Consensus 139 l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~L 172 (182)
T PRK09652 139 LREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREAL 172 (182)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3334577899999999 889999988877655443
No 83
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=38.02 E-value=75 Score=21.45 Aligned_cols=40 Identities=20% Similarity=0.284 Sum_probs=27.9
Q ss_pred CCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHH
Q 016021 70 FSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSC 111 (396)
Q Consensus 70 WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~ 111 (396)
++++ +..++.+....|-.+..||+.+ |-+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4444 4555556556778899999998 77778887665544
No 84
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=37.58 E-value=83 Score=28.73 Aligned_cols=47 Identities=19% Similarity=0.205 Sum_probs=39.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhhcCC----CCCHHHHHHHHHHHh
Q 016021 66 KRGMFSQQEEDLIISLHEVLGNRWAQIASQLP----GRTDNEIKNFWNSCL 112 (396)
Q Consensus 66 kkg~WT~EED~~Llelv~~~G~kW~~IAk~Lp----GRT~~qcRnRW~~~L 112 (396)
....-|+.|..-|..|+.+||.++...+.-.. -.|..||+.+...+.
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 44578999999999999999999999986653 389999998876654
No 85
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=36.86 E-value=36 Score=37.90 Aligned_cols=46 Identities=15% Similarity=0.376 Sum_probs=35.1
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCceeccc----------ccccccccccchhhhhhcc
Q 016021 14 KGLWSPEEDEKLYNYITRFGVGCWSSVPK----------LAGLQRCGKSCRLRWINYL 61 (396)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk----------~mg~gRt~kQCReRW~n~L 61 (396)
|..||-.|.+....+++++| ++..+|-+ ... -++-.|.|.+|.+.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~-~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQ-SKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchh-hhhhHHHHHHHHHHH
Confidence 66899999999999999999 66888822 222 356678888887654
No 86
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=36.57 E-value=51 Score=27.89 Aligned_cols=48 Identities=17% Similarity=0.175 Sum_probs=32.3
Q ss_pred CCCCHHHHHHHHHHHHHh----C----CchhhhhhcCCC-----CCHHHHHHHHHHHhhhh
Q 016021 68 GMFSQQEEDLIISLHEVL----G----NRWAQIASQLPG-----RTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 68 g~WT~EED~~Llelv~~~----G----~kW~~IAk~LpG-----RT~~qcRnRW~~~Lkk~ 115 (396)
.-||+|+|..||+.+..| | ..|..+-..+.+ =+..|+.++-..+.++.
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky 65 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKY 65 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHH
Confidence 469999999999998776 6 245444433322 27778877776666553
No 87
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=36.55 E-value=35 Score=26.29 Aligned_cols=27 Identities=22% Similarity=0.473 Sum_probs=21.5
Q ss_pred hhhhhhcCCC-CCHHHHHHHHHHHhhhh
Q 016021 89 WAQIASQLPG-RTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 89 W~~IAk~LpG-RT~~qcRnRW~~~Lkk~ 115 (396)
|..||..+.. -+...|+.||.++...-
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~y 56 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDRY 56 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHHH
Confidence 9999999953 57889999998766543
No 88
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=36.47 E-value=60 Score=26.62 Aligned_cols=45 Identities=13% Similarity=0.172 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHhCC-chhhhhhcCCCCCHHHHHHHHHHHhhhhhhh
Q 016021 73 QEEDLIISLHEVLGN-RWAQIASQLPGRTDNEIKNFWNSCLKKKLMK 118 (396)
Q Consensus 73 EED~~Llelv~~~G~-kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk 118 (396)
+.|.+|+.+..+.|. .+.+||+.+ |-+...|+.|...+.+..+.+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 568888888888774 699999999 999999999999888776544
No 89
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=36.20 E-value=69 Score=27.79 Aligned_cols=30 Identities=23% Similarity=0.236 Sum_probs=24.0
Q ss_pred HhCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 84 VLGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 84 ~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
..|-.+.+||+.+ |-+...|+++....+++
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3467799999999 88999999888765544
No 90
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=34.39 E-value=42 Score=40.20 Aligned_cols=74 Identities=18% Similarity=0.217 Sum_probs=46.9
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHh-CCchhhh
Q 016021 14 KGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGMFSQQEEDLIISLHEVL-GNRWAQI 92 (396)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkkg~WT~EED~~Llelv~~~-G~kW~~I 92 (396)
-.-|..+||..|+-.|-+||-++|.+|-.- +.-|... +..+...+-.+.|=..+-..|+.+...+ +.+|...
T Consensus 1133 ~~~W~~e~Ds~LLiGI~khGygswe~Ir~D------p~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~ 1205 (1373)
T KOG0384|consen 1133 DCDWGSEDDSMLLIGIFKHGYGSWEAIRLD------PDLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKK 1205 (1373)
T ss_pred ccCCCchhhhhHhhhhhhcccccHHHhccC------ccccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCchh
Confidence 356999999999999999999999999321 1111110 1112222445566667777777777666 5555554
Q ss_pred hh
Q 016021 93 AS 94 (396)
Q Consensus 93 Ak 94 (396)
.+
T Consensus 1206 ~~ 1207 (1373)
T KOG0384|consen 1206 LK 1207 (1373)
T ss_pred hh
Confidence 43
No 91
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=34.13 E-value=79 Score=28.90 Aligned_cols=37 Identities=16% Similarity=0.230 Sum_probs=28.4
Q ss_pred HHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhh
Q 016021 76 DLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLK 113 (396)
Q Consensus 76 ~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lk 113 (396)
..++++..-.|-.+.+||+.+ |-+...|+.+|.....
T Consensus 141 ~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~ 177 (185)
T PF07638_consen 141 RRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARA 177 (185)
T ss_pred HHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 344444444577899999999 9999999999986653
No 92
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=32.72 E-value=58 Score=26.90 Aligned_cols=29 Identities=24% Similarity=0.444 Sum_probs=23.5
Q ss_pred HHHHHHHHHHhCCchhhhhhcCCCCCHHHH
Q 016021 75 EDLIISLHEVLGNRWAQIASQLPGRTDNEI 104 (396)
Q Consensus 75 D~~Llelv~~~G~kW~~IAk~LpGRT~~qc 104 (396)
|..|..+....|..|..+|..| |=+...|
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI 32 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEI 32 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHH
Confidence 6778888899999999999999 5555443
No 93
>PRK09750 hypothetical protein; Provisional
Probab=32.52 E-value=24 Score=27.97 Aligned_cols=29 Identities=31% Similarity=0.668 Sum_probs=23.1
Q ss_pred hhhhceeccccccccccCCCCCCcCcccCCCccccCCCCcc
Q 016021 339 MFHQFQVNGIIKSEEIITPSPWQEGQLHTPSSVDFSSYPLT 379 (396)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 379 (396)
|+ .|+|+++||-+- -.|-.| +-||.+|+|
T Consensus 1 my-kY~I~Ati~KpG-g~P~~W----------~r~s~~~mt 29 (64)
T PRK09750 1 MY-MYKITATIEKEG-GTPTNW----------TRYSKSKLT 29 (64)
T ss_pred Cc-eeEEEEEEECCC-CCccce----------eEecCCcCC
Confidence 45 799999999887 777777 458888886
No 94
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=32.29 E-value=23 Score=29.08 Aligned_cols=45 Identities=13% Similarity=0.065 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCC
Q 016021 20 EEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLK 66 (396)
Q Consensus 20 EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lk 66 (396)
+.|.+++.++.+.+...+..||+.++ -+...|+.|..+..+.++-
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g~i 47 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEGVI 47 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 57889999999988778999999997 8889999988876655543
No 95
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=31.62 E-value=92 Score=28.33 Aligned_cols=30 Identities=20% Similarity=0.212 Sum_probs=24.3
Q ss_pred HhCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 84 VLGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 84 ~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
..|-...+||..+ |-+...|+.|+...+++
T Consensus 148 ~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 148 MQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3467799999999 89999999998655544
No 96
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=31.26 E-value=20 Score=31.14 Aligned_cols=47 Identities=6% Similarity=0.022 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCCCC
Q 016021 19 PEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKR 67 (396)
Q Consensus 19 ~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~lkk 67 (396)
.+-|.+++++.++.+...+..||+.+| -++..|+.|-.+..+.++-+
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEGVIK 53 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCcee
Confidence 456889999999999889999999998 89999999988776665443
No 97
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=30.60 E-value=82 Score=27.86 Aligned_cols=29 Identities=10% Similarity=-0.033 Sum_probs=23.5
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
.|..+.+||+.+ |-+...|+++....+++
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466799999999 88999999888766554
No 98
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=28.29 E-value=56 Score=26.42 Aligned_cols=29 Identities=28% Similarity=0.685 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhCCchhhhhhcCCCCCHHHH
Q 016021 75 EDLIISLHEVLGNRWAQIASQLPGRTDNEI 104 (396)
Q Consensus 75 D~~Llelv~~~G~kW~~IAk~LpGRT~~qc 104 (396)
|..|..+.+..|..|.++|+.| |=+..+|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI 32 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDI 32 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHH
Confidence 5567788889999999999999 5554433
No 99
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=28.25 E-value=1.1e+02 Score=26.84 Aligned_cols=30 Identities=20% Similarity=0.330 Sum_probs=23.8
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
.|-...+||+.+ |-|...|+.+....+++-
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~L 163 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKKL 163 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 356789999999 789999999887766553
No 100
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=28.19 E-value=88 Score=27.74 Aligned_cols=30 Identities=10% Similarity=0.041 Sum_probs=23.7
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
.|-...+||+.+ |-+...|+.+....+++-
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~L 182 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREAI 182 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 356789999999 888999999887666543
No 101
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=27.64 E-value=1.2e+02 Score=27.09 Aligned_cols=30 Identities=17% Similarity=0.222 Sum_probs=24.2
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
.|-...+||..+ |-+...|+.|....+++-
T Consensus 154 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~L 183 (189)
T PRK09648 154 VGLSAEETAEAV-GSTPGAVRVAQHRALARL 183 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 467799999999 888999998887666553
No 102
>PRK04217 hypothetical protein; Provisional
Probab=27.39 E-value=1.2e+02 Score=26.57 Aligned_cols=45 Identities=16% Similarity=0.141 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 69 MFSQQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 69 ~WT~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
.-|.+| ..++.+....|-...+||+.+ |-+...|+.++....++.
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 466666 677788887888999999999 999999999987655443
No 103
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=27.31 E-value=1.4e+02 Score=26.59 Aligned_cols=31 Identities=13% Similarity=0.153 Sum_probs=24.6
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKKKL 116 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~l 116 (396)
.|-...+||..| |-+...|+.+....+++-.
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr 176 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAALA 176 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 466789999999 8999999998876665543
No 104
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=26.63 E-value=1.6e+02 Score=26.08 Aligned_cols=35 Identities=20% Similarity=0.353 Sum_probs=27.0
Q ss_pred HHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhhhh
Q 016021 81 LHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKKKL 116 (396)
Q Consensus 81 lv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~l 116 (396)
+....|-...+||+.+ |.+...|+.|-...+++-.
T Consensus 130 L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~ 164 (172)
T PRK12523 130 YNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCY 164 (172)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 3334567899999999 9999999998877666543
No 105
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=26.55 E-value=1.2e+02 Score=27.34 Aligned_cols=29 Identities=14% Similarity=0.094 Sum_probs=23.0
Q ss_pred CCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 86 GNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 86 G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
|-...+||+.+ |-+...|+.|....+++-
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~L 182 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREAI 182 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 56689999999 888999998887665543
No 106
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=26.53 E-value=1.3e+02 Score=26.94 Aligned_cols=30 Identities=13% Similarity=0.099 Sum_probs=24.2
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
.|-...+||+.| |-+...|+.|....+++-
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~L 175 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKKL 175 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 467799999999 889999999987665443
No 107
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=25.84 E-value=1e+02 Score=27.23 Aligned_cols=29 Identities=10% Similarity=-0.025 Sum_probs=23.0
Q ss_pred CCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 86 GNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 86 G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
|-...+||+.+ |.+...|+.+....+++-
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~L 180 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREAL 180 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 56789999998 889999998887665543
No 108
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=25.81 E-value=99 Score=26.76 Aligned_cols=45 Identities=13% Similarity=0.151 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHhCC-chhhhhhcCCCCCHHHHHHHHHHHhhhhhhh
Q 016021 73 QEEDLIISLHEVLGN-RWAQIASQLPGRTDNEIKNFWNSCLKKKLMK 118 (396)
Q Consensus 73 EED~~Llelv~~~G~-kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk 118 (396)
+-|.+|+++.++-|. .+..||+.+ |-+...|++|-..+.+..+.+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIK 53 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCcee
Confidence 567788888877774 599999999 899999999998888776544
No 109
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=25.76 E-value=1.3e+02 Score=25.85 Aligned_cols=29 Identities=14% Similarity=0.195 Sum_probs=23.7
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
.|-.-.+||..+ |-+...|+.|....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 88999999988766544
No 110
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=25.20 E-value=1.4e+02 Score=27.07 Aligned_cols=30 Identities=23% Similarity=0.118 Sum_probs=24.1
Q ss_pred HhCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 84 VLGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 84 ~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
..|-...+||..| |-+...|+.|....+++
T Consensus 120 ~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 120 LEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred hcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3467899999999 88999999988766544
No 111
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=24.87 E-value=1.5e+02 Score=26.73 Aligned_cols=29 Identities=14% Similarity=0.179 Sum_probs=22.9
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
.|-.-.+||+.+ |-+...|+.|....++.
T Consensus 151 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 179 (195)
T PRK12532 151 LGFSSDEIQQMC-GISTSNYHTIMHRARES 179 (195)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 89999999887765443
No 112
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=24.64 E-value=47 Score=35.86 Aligned_cols=46 Identities=13% Similarity=0.099 Sum_probs=39.0
Q ss_pred CCCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhh
Q 016021 11 KLRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWI 58 (396)
Q Consensus 11 kikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~ 58 (396)
+.....||.||--++-++...|| .+..+|-+.|+ .|+-..++.-|.
T Consensus 184 ~~~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP-~rsLaSlvqyYy 229 (534)
T KOG1194|consen 184 TEFPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALP-HRSLASLVQYYY 229 (534)
T ss_pred CCCcccchHHHHHHHHHHHHHhc-ccHHHHHHHcc-CccHHHHHHHHH
Confidence 44567899999999999999999 56999999998 999888776554
No 113
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=24.55 E-value=1.5e+02 Score=26.83 Aligned_cols=30 Identities=13% Similarity=0.015 Sum_probs=23.7
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKKK 115 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~ 115 (396)
.|-...+||+.+ |-+...|+.|....+++-
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~L 185 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEKL 185 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHHH
Confidence 466789999999 999999998877665543
No 114
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=24.33 E-value=87 Score=25.66 Aligned_cols=24 Identities=33% Similarity=0.638 Sum_probs=18.5
Q ss_pred HHHHHhCCchhhhhhcCCCCCHHHH
Q 016021 80 SLHEVLGNRWAQIASQLPGRTDNEI 104 (396)
Q Consensus 80 elv~~~G~kW~~IAk~LpGRT~~qc 104 (396)
.+....|.+|.++|..| |-+..+|
T Consensus 12 ~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 12 VFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 35578899999999999 6565554
No 115
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=24.30 E-value=1.4e+02 Score=26.30 Aligned_cols=29 Identities=31% Similarity=0.361 Sum_probs=23.4
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
.|-.-.+||+.+ |.+...|+.|....+++
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466789999999 89999999988766544
No 116
>TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=24.30 E-value=1.5e+02 Score=26.81 Aligned_cols=33 Identities=18% Similarity=0.206 Sum_probs=25.5
Q ss_pred HHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 81 LHEVLGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 81 lv~~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
+....|-...+||+.+ |-+...|+.|....+++
T Consensus 142 l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 142 MREVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3334467799999999 99999999988766554
No 117
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=24.17 E-value=1.6e+02 Score=26.36 Aligned_cols=34 Identities=18% Similarity=0.147 Sum_probs=27.3
Q ss_pred HhCCchhhhhhcCCCCCHHHHHHHHHHHhhhhhhh
Q 016021 84 VLGNRWAQIASQLPGRTDNEIKNFWNSCLKKKLMK 118 (396)
Q Consensus 84 ~~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk~lkk 118 (396)
..|-...+||+.+ |-+...|+.|....+..-+.+
T Consensus 141 ~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 141 LDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 3467899999999 999999999988777665443
No 118
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=24.05 E-value=1.6e+02 Score=25.29 Aligned_cols=50 Identities=12% Similarity=0.157 Sum_probs=32.1
Q ss_pred cccCCCCccCCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhhhhhcc
Q 016021 7 CVKQKLRKGLWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYL 61 (396)
Q Consensus 7 ~lkpkikKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L 61 (396)
|+.+ .++.+||.|+-...+..+...|. .=..||+.+|. +..+ ..+|.+.+
T Consensus 4 ~~~~-~~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI--s~~t-l~~W~r~y 53 (121)
T PRK09413 4 VLGP-EKRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV--AASQ-LFLWRKQY 53 (121)
T ss_pred cCCC-CCCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc--CHHH-HHHHHHHH
Confidence 3444 33567999998877777766662 35678888873 3333 45677654
No 119
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=23.36 E-value=90 Score=25.58 Aligned_cols=30 Identities=27% Similarity=0.574 Sum_probs=23.6
Q ss_pred HHHHHHHHHHhCCchhhhhhcCCCCCHHHHH
Q 016021 75 EDLIISLHEVLGNRWAQIASQLPGRTDNEIK 105 (396)
Q Consensus 75 D~~Llelv~~~G~kW~~IAk~LpGRT~~qcR 105 (396)
|..|-.+....|.+|..+|+.| |=+...|.
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~ 33 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIH 33 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 4567778889999999999999 65655554
No 120
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=23.13 E-value=41 Score=31.06 Aligned_cols=38 Identities=18% Similarity=0.242 Sum_probs=28.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceecccccccccccccchhh
Q 016021 16 LWSPEEDEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLR 56 (396)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReR 56 (396)
.||+|+.++|.++..+ | ..=.+||+.|| +.+...+.-+
T Consensus 2 ~Wtde~~~~L~~lw~~-G-~SasqIA~~lg-~vsRnAViGk 39 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-G-LSASQIARQLG-GVSRNAVIGK 39 (162)
T ss_pred CCCHHHHHHHHHHHHc-C-CCHHHHHHHhC-Ccchhhhhhh
Confidence 5999999999999865 4 23688999998 5555444433
No 121
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=23.09 E-value=53 Score=34.63 Aligned_cols=41 Identities=15% Similarity=0.158 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceec-ccccccccccccchhhhh
Q 016021 16 LWSPEEDEKLYNYITRFGVGCWSSV-PKLAGLQRCGKSCRLRWI 58 (396)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~I-Ak~mg~gRt~kQCReRW~ 58 (396)
.|+.+|-...-+.++.|| ++...| +.++. .|+...|-+-|.
T Consensus 279 ~wsEeEcr~FEegl~~yG-KDF~lIr~nkvr-tRsvgElVeyYY 320 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYG-KDFHLIRANKVR-TRSVGELVEYYY 320 (445)
T ss_pred cCCHHHHHHHHHHHHHhc-ccHHHHHhcccc-cchHHHHHHHHH
Confidence 599999999999999999 668888 56777 888888877654
No 122
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=22.89 E-value=1.8e+02 Score=25.17 Aligned_cols=29 Identities=14% Similarity=-0.049 Sum_probs=23.3
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
.|-.-.+||+.+ |-+...|+.|....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 121 EEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 99999999887765544
No 123
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=22.86 E-value=89 Score=24.66 Aligned_cols=28 Identities=21% Similarity=0.499 Sum_probs=20.3
Q ss_pred HHHHHHHHHH-hCCchhhhhhcCCCCCHHH
Q 016021 75 EDLIISLHEV-LGNRWAQIASQLPGRTDNE 103 (396)
Q Consensus 75 D~~Llelv~~-~G~kW~~IAk~LpGRT~~q 103 (396)
+..|..++.. .|.+|..+|+.++ =+..+
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~Lg-~~~~~ 33 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKLG-LSEAD 33 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHcC-CCHHH
Confidence 4566666766 8999999999994 34443
No 124
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=22.84 E-value=78 Score=25.76 Aligned_cols=33 Identities=27% Similarity=0.529 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHH
Q 016021 72 QQEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKN 106 (396)
Q Consensus 72 ~EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRn 106 (396)
+||.++|+.. -..|.+|..+|..| |=+...|++
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5788888833 25688999999999 666666643
No 125
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=22.39 E-value=1.5e+02 Score=26.86 Aligned_cols=29 Identities=10% Similarity=0.047 Sum_probs=23.6
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
.|-...+||..| |-+...|+.|....+++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466799999999 99999999987655543
No 126
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=22.17 E-value=1.5e+02 Score=26.87 Aligned_cols=29 Identities=10% Similarity=0.026 Sum_probs=22.8
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 85 LGNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 85 ~G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
.|-.+.+||+.+ |-+...|+.+....+++
T Consensus 151 ~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 151 EGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 467799999999 88888888887665544
No 127
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=21.42 E-value=47 Score=26.64 Aligned_cols=44 Identities=11% Similarity=0.430 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhCCCCceecccccccccccccchhhhhhccCCCC-------CCCCCCHHHHHHH
Q 016021 22 DEKLYNYITRFGVGCWSSVPKLAGLQRCGKSCRLRWINYLRPDL-------KRGMFSQQEEDLI 78 (396)
Q Consensus 22 De~L~~lV~kyG~~nW~~IAk~mg~gRt~kQCReRW~n~L~P~l-------kkg~WT~EED~~L 78 (396)
+.+|.++|..|| |...++.+. -| |.. -+|.+ +|.+|-.+..+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~-i~----CF~-----~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERIN-IN----CFK-----NNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTT-SS----STT-----SS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcc-cc----cCC-----CCCchHHHHHHHhcCHhHHHHHHHh
Confidence 578999999999 999998876 22 322 24433 4668877766554
No 128
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=20.84 E-value=1.3e+02 Score=24.72 Aligned_cols=21 Identities=29% Similarity=0.528 Sum_probs=18.9
Q ss_pred HHHHHHHHHhCCchhhhhhcC
Q 016021 76 DLIISLHEVLGNRWAQIASQL 96 (396)
Q Consensus 76 ~~Llelv~~~G~kW~~IAk~L 96 (396)
..|..+....|..|..+|..+
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 468888999999999999998
No 129
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=20.21 E-value=1.9e+02 Score=24.68 Aligned_cols=28 Identities=21% Similarity=0.327 Sum_probs=21.8
Q ss_pred CCchhhhhhcCCCCCHHHHHHHHHHHhhh
Q 016021 86 GNRWAQIASQLPGRTDNEIKNFWNSCLKK 114 (396)
Q Consensus 86 G~kW~~IAk~LpGRT~~qcRnRW~~~Lkk 114 (396)
|-...+||+.+ |.+...|+.+-...+++
T Consensus 122 ~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 122 GKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55688999988 88999998887665544
No 130
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=20.15 E-value=1.6e+02 Score=20.70 Aligned_cols=34 Identities=24% Similarity=0.201 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHH
Q 016021 73 QEEDLIISLHEVLGNRWAQIASQLPGRTDNEIKNF 107 (396)
Q Consensus 73 EED~~Llelv~~~G~kW~~IAk~LpGRT~~qcRnR 107 (396)
=|...|.++...+|++..+.|+.+ |=+...+..|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 367788899999999999999998 6666655544
No 131
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.14 E-value=2.6e+02 Score=23.43 Aligned_cols=46 Identities=15% Similarity=0.175 Sum_probs=36.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCC-CHHHHHHHHHHHhh
Q 016021 67 RGMFSQQEEDLIISLHEVLGNRWAQIASQLPGR-TDNEIKNFWNSCLK 113 (396)
Q Consensus 67 kg~WT~EED~~Llelv~~~G~kW~~IAk~LpGR-T~~qcRnRW~~~Lk 113 (396)
+..||.|+-..+++++..-|..=..||+.+ |- .+.+++.++..+..
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~~~ 51 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQLQK 51 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHHHH
Confidence 568999999999999999898889999999 75 67666654444433
No 132
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=20.01 E-value=1e+02 Score=25.41 Aligned_cols=30 Identities=37% Similarity=0.630 Sum_probs=22.3
Q ss_pred HHHHHHHHHhCCchhhhhhcCCCCCHHHHHH
Q 016021 76 DLIISLHEVLGNRWAQIASQLPGRTDNEIKN 106 (396)
Q Consensus 76 ~~Llelv~~~G~kW~~IAk~LpGRT~~qcRn 106 (396)
+.|-.+....|.+|+.+|+.| |=+..+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 345555678899999999999 666666643
Done!